-- dump date 20140619_050708 -- class Genbank::misc_feature -- table misc_feature_note -- id note 698962000001 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 698962000002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 698962000003 Walker A motif; other site 698962000004 ATP binding site [chemical binding]; other site 698962000005 Walker B motif; other site 698962000006 arginine finger; other site 698962000007 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 698962000008 DnaA box-binding interface [nucleotide binding]; other site 698962000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 698962000010 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 698962000011 putative DNA binding surface [nucleotide binding]; other site 698962000012 dimer interface [polypeptide binding]; other site 698962000013 beta-clamp/clamp loader binding surface; other site 698962000014 beta-clamp/translesion DNA polymerase binding surface; other site 698962000015 recombination protein F; Reviewed; Region: recF; PRK00064 698962000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 698962000017 Walker A/P-loop; other site 698962000018 ATP binding site [chemical binding]; other site 698962000019 Q-loop/lid; other site 698962000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962000021 ABC transporter signature motif; other site 698962000022 Walker B; other site 698962000023 D-loop; other site 698962000024 H-loop/switch region; other site 698962000025 hypothetical protein; Provisional; Region: PRK00111 698962000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 698962000027 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 698962000028 ATP binding site [chemical binding]; other site 698962000029 Mg2+ binding site [ion binding]; other site 698962000030 G-X-G motif; other site 698962000031 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 698962000032 anchoring element; other site 698962000033 dimer interface [polypeptide binding]; other site 698962000034 ATP binding site [chemical binding]; other site 698962000035 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 698962000036 active site 698962000037 putative metal-binding site [ion binding]; other site 698962000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 698962000039 DNA gyrase subunit A; Validated; Region: PRK05560 698962000040 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 698962000041 CAP-like domain; other site 698962000042 active site 698962000043 primary dimer interface [polypeptide binding]; other site 698962000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 698962000050 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 698962000051 Transcriptional regulators [Transcription]; Region: FadR; COG2186 698962000052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962000053 DNA-binding site [nucleotide binding]; DNA binding site 698962000054 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 698962000055 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 698962000056 L-lactate permease; Region: Lactate_perm; cl00701 698962000057 Cadherin repeat-like domain; Region: CA_like; cl15786 698962000058 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962000059 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962000060 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 698962000061 Walker A/P-loop; other site 698962000062 ATP binding site [chemical binding]; other site 698962000063 Q-loop/lid; other site 698962000064 ABC transporter signature motif; other site 698962000065 Walker B; other site 698962000066 D-loop; other site 698962000067 H-loop/switch region; other site 698962000068 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962000069 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 698962000070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962000071 Walker A/P-loop; other site 698962000072 ATP binding site [chemical binding]; other site 698962000073 Q-loop/lid; other site 698962000074 ABC transporter signature motif; other site 698962000075 Walker B; other site 698962000076 D-loop; other site 698962000077 H-loop/switch region; other site 698962000078 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 698962000079 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 698962000080 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 698962000081 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 698962000082 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 698962000083 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 698962000084 putative ligand binding site [chemical binding]; other site 698962000085 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 698962000086 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 698962000087 TM-ABC transporter signature motif; other site 698962000088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962000089 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 698962000090 Walker A/P-loop; other site 698962000091 ATP binding site [chemical binding]; other site 698962000092 Q-loop/lid; other site 698962000093 ABC transporter signature motif; other site 698962000094 Walker B; other site 698962000095 D-loop; other site 698962000096 H-loop/switch region; other site 698962000097 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 698962000098 active site 698962000099 Integrase core domain; Region: rve_2; pfam13333 698962000100 Rhomboid family; Region: Rhomboid; pfam01694 698962000101 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 698962000102 ThiC-associated domain; Region: ThiC-associated; pfam13667 698962000103 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 698962000104 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 698962000105 thiamine phosphate binding site [chemical binding]; other site 698962000106 active site 698962000107 pyrophosphate binding site [ion binding]; other site 698962000108 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 698962000109 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 698962000110 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 698962000111 thiS-thiF/thiG interaction site; other site 698962000112 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 698962000113 ThiS interaction site; other site 698962000114 putative active site [active] 698962000115 tetramer interface [polypeptide binding]; other site 698962000116 thiamine biosynthesis protein ThiF; Validated; Region: PRK05600 698962000117 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 698962000118 ATP binding site [chemical binding]; other site 698962000119 substrate interface [chemical binding]; other site 698962000120 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 698962000121 active site residue [active] 698962000122 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 698962000123 dimer interface [polypeptide binding]; other site 698962000124 substrate binding site [chemical binding]; other site 698962000125 ATP binding site [chemical binding]; other site 698962000126 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 698962000127 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 698962000128 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 698962000129 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 698962000130 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 698962000131 potential frameshift: common BLAST hit: gi|336326698|ref|YP_004606664.1| transposase for insertion sequence element 698962000132 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962000133 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962000134 MULE transposase domain; Region: MULE; pfam10551 698962000135 putative septation inhibitor protein; Reviewed; Region: PRK00159 698962000136 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 698962000137 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 698962000138 active site 698962000139 ATP binding site [chemical binding]; other site 698962000140 substrate binding site [chemical binding]; other site 698962000141 activation loop (A-loop); other site 698962000142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 698962000143 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 698962000144 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 698962000145 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 698962000146 PASTA domain; Region: PASTA; pfam03793 698962000147 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 698962000148 Catalytic domain of Protein Kinases; Region: PKc; cd00180 698962000149 active site 698962000150 ATP binding site [chemical binding]; other site 698962000151 substrate binding site [chemical binding]; other site 698962000152 activation loop (A-loop); other site 698962000153 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 698962000154 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 698962000155 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 698962000156 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 698962000157 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 698962000158 Protein phosphatase 2C; Region: PP2C; pfam00481 698962000159 active site 698962000160 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 698962000161 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 698962000162 phosphopeptide binding site; other site 698962000163 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 698962000164 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 698962000165 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 698962000166 phosphopeptide binding site; other site 698962000167 DDE domain; Region: DDE_Tnp_IS240; pfam13610 698962000168 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 698962000169 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 698962000170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 698962000171 Soluble P-type ATPase [General function prediction only]; Region: COG4087 698962000172 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 698962000173 metal-binding site [ion binding] 698962000174 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 698962000175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962000176 dimerization interface [polypeptide binding]; other site 698962000177 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 698962000178 dimer interface [polypeptide binding]; other site 698962000179 phosphorylation site [posttranslational modification] 698962000180 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 698962000181 ATP binding site [chemical binding]; other site 698962000182 Mg2+ binding site [ion binding]; other site 698962000183 G-X-G motif; other site 698962000184 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962000185 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 698962000186 active site 698962000187 phosphorylation site [posttranslational modification] 698962000188 intermolecular recognition site; other site 698962000189 dimerization interface [polypeptide binding]; other site 698962000190 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 698962000191 DNA binding site [nucleotide binding] 698962000192 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962000193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962000194 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962000195 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 698962000196 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 698962000197 Multicopper oxidase; Region: Cu-oxidase; pfam00394 698962000198 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 698962000199 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 698962000200 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 698962000201 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 698962000202 dimerization interface [polypeptide binding]; other site 698962000203 putative DNA binding site [nucleotide binding]; other site 698962000204 putative Zn2+ binding site [ion binding]; other site 698962000205 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 698962000206 Cadmium resistance transporter; Region: Cad; pfam03596 698962000207 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 698962000208 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 698962000209 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962000210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962000211 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962000212 mercuric reductase; Region: MerA; TIGR02053 698962000213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962000214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 698962000215 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 698962000216 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 698962000217 catalytic residues [active] 698962000218 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 698962000219 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 698962000220 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 698962000221 DNA binding residues [nucleotide binding] 698962000222 dimer interface [polypeptide binding]; other site 698962000223 metal binding site [ion binding]; metal-binding site 698962000224 NIPSNAP; Region: NIPSNAP; pfam07978 698962000225 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 698962000226 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 698962000227 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962000228 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 698962000229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 698962000230 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 698962000231 arsenical-resistance protein; Region: acr3; TIGR00832 698962000232 Low molecular weight phosphatase family; Region: LMWPc; cl00105 698962000233 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 698962000234 active site 698962000235 Predicted permeases [General function prediction only]; Region: COG0701 698962000236 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 698962000237 dimerization interface [polypeptide binding]; other site 698962000238 putative DNA binding site [nucleotide binding]; other site 698962000239 putative Zn2+ binding site [ion binding]; other site 698962000240 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962000241 MULE transposase domain; Region: MULE; pfam10551 698962000242 Integrase core domain; Region: rve_2; pfam13333 698962000243 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 698962000244 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 698962000245 DTAP/Switch II; other site 698962000246 Switch I; other site 698962000247 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 698962000248 P loop; other site 698962000249 Nucleotide binding site [chemical binding]; other site 698962000250 DTAP/Switch II; other site 698962000251 Switch I; other site 698962000252 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 698962000253 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 698962000254 dimerization interface [polypeptide binding]; other site 698962000255 putative DNA binding site [nucleotide binding]; other site 698962000256 putative Zn2+ binding site [ion binding]; other site 698962000257 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 698962000258 Low molecular weight phosphatase family; Region: LMWPc; cl00105 698962000259 active site 698962000260 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962000261 MULE transposase domain; Region: MULE; pfam10551 698962000262 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 698962000263 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 698962000264 non-specific DNA binding site [nucleotide binding]; other site 698962000265 salt bridge; other site 698962000266 sequence-specific DNA binding site [nucleotide binding]; other site 698962000267 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 698962000268 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 698962000269 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 698962000270 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 698962000271 Walker A/P-loop; other site 698962000272 ATP binding site [chemical binding]; other site 698962000273 Q-loop/lid; other site 698962000274 ABC transporter signature motif; other site 698962000275 Walker B; other site 698962000276 D-loop; other site 698962000277 H-loop/switch region; other site 698962000278 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962000279 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 698962000280 active site 698962000281 phosphorylation site [posttranslational modification] 698962000282 intermolecular recognition site; other site 698962000283 dimerization interface [polypeptide binding]; other site 698962000284 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962000285 DNA binding residues [nucleotide binding] 698962000286 dimerization interface [polypeptide binding]; other site 698962000287 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 698962000288 Histidine kinase; Region: HisKA_3; pfam07730 698962000289 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 698962000290 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 698962000291 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 698962000292 dimer interface [polypeptide binding]; other site 698962000293 conserved gate region; other site 698962000294 putative PBP binding loops; other site 698962000295 ABC-ATPase subunit interface; other site 698962000296 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 698962000297 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 698962000298 Walker A/P-loop; other site 698962000299 ATP binding site [chemical binding]; other site 698962000300 Q-loop/lid; other site 698962000301 ABC transporter signature motif; other site 698962000302 Walker B; other site 698962000303 D-loop; other site 698962000304 H-loop/switch region; other site 698962000305 Anti-sigma-K factor rskA; Region: RskA; pfam10099 698962000306 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 698962000307 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962000308 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 698962000309 DNA binding residues [nucleotide binding] 698962000310 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 698962000311 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 698962000312 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 698962000313 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 698962000314 catalytic residues [active] 698962000315 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 698962000316 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 698962000317 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 698962000318 putative metal binding site [ion binding]; other site 698962000319 biotin synthase; Validated; Region: PRK06256 698962000320 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 698962000321 FeS/SAM binding site; other site 698962000322 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 698962000323 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 698962000324 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 698962000325 putative ligand binding residues [chemical binding]; other site 698962000326 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 698962000327 ABC-ATPase subunit interface; other site 698962000328 dimer interface [polypeptide binding]; other site 698962000329 putative PBP binding regions; other site 698962000330 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962000331 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 698962000332 Walker A/P-loop; other site 698962000333 ATP binding site [chemical binding]; other site 698962000334 Q-loop/lid; other site 698962000335 ABC transporter signature motif; other site 698962000336 Walker B; other site 698962000337 D-loop; other site 698962000338 H-loop/switch region; other site 698962000339 Uncharacterized conserved protein [Function unknown]; Region: COG5646 698962000340 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 698962000341 DNA photolyase; Region: DNA_photolyase; pfam00875 698962000342 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 698962000343 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 698962000344 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 698962000345 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 698962000346 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 698962000347 Lipase (class 2); Region: Lipase_2; pfam01674 698962000348 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 698962000349 dimer interface [polypeptide binding]; other site 698962000350 FMN binding site [chemical binding]; other site 698962000351 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 698962000352 Divergent AAA domain; Region: AAA_4; pfam04326 698962000353 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 698962000354 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 698962000355 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 698962000356 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 698962000357 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 698962000358 trimer interface [polypeptide binding]; other site 698962000359 putative metal binding site [ion binding]; other site 698962000360 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 698962000361 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 698962000362 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 698962000363 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 698962000364 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 698962000365 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 698962000366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 698962000367 Transcriptional regulators [Transcription]; Region: MarR; COG1846 698962000368 MarR family; Region: MarR; pfam01047 698962000369 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 698962000370 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 698962000371 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 698962000372 hypothetical protein; Provisional; Region: PRK10621 698962000373 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 698962000374 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 698962000375 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 698962000376 ATP binding site [chemical binding]; other site 698962000377 putative Mg++ binding site [ion binding]; other site 698962000378 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 698962000379 nucleotide binding region [chemical binding]; other site 698962000380 Helicase associated domain (HA2); Region: HA2; pfam04408 698962000381 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 698962000382 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 698962000383 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962000384 putative CoA binding site [chemical binding]; other site 698962000385 putative trimer interface [polypeptide binding]; other site 698962000386 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 698962000387 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 698962000388 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 698962000389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962000390 NAD(P) binding site [chemical binding]; other site 698962000391 active site 698962000392 potential frameshift: common BLAST hit: gi|336325819|ref|YP_004605785.1| transposase for insertion sequence element 698962000393 potential frameshift: common BLAST hit: gi|336325819|ref|YP_004605785.1| transposase for insertion sequence element 698962000394 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962000395 Integrase core domain; Region: rve; pfam00665 698962000396 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962000397 Integrase core domain; Region: rve; pfam00665 698962000398 SdpI/YhfL protein family; Region: SdpI; pfam13630 698962000399 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 698962000400 RNA binding surface [nucleotide binding]; other site 698962000401 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 698962000402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 698962000403 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 698962000404 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 698962000405 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 698962000406 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 698962000407 active site 698962000408 Zn binding site [ion binding]; other site 698962000409 Protease prsW family; Region: PrsW-protease; pfam13367 698962000410 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 698962000411 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 698962000412 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 698962000413 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 698962000414 short chain dehydrogenase; Provisional; Region: PRK07904 698962000415 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 698962000416 NAD(P) binding site [chemical binding]; other site 698962000417 active site 698962000418 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 698962000419 FAD binding domain; Region: FAD_binding_4; pfam01565 698962000420 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 698962000421 Predicted membrane protein [Function unknown]; Region: COG2246 698962000422 GtrA-like protein; Region: GtrA; pfam04138 698962000423 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 698962000424 putative active site [active] 698962000425 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 698962000426 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 698962000427 active site 698962000428 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 698962000429 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 698962000430 intersubunit interface [polypeptide binding]; other site 698962000431 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 698962000432 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 698962000433 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 698962000434 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 698962000435 ABC-ATPase subunit interface; other site 698962000436 dimer interface [polypeptide binding]; other site 698962000437 putative PBP binding regions; other site 698962000438 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 698962000439 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 698962000440 ABC-ATPase subunit interface; other site 698962000441 dimer interface [polypeptide binding]; other site 698962000442 putative PBP binding regions; other site 698962000443 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 698962000444 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 698962000445 intersubunit interface [polypeptide binding]; other site 698962000446 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 698962000447 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 698962000448 Walker A/P-loop; other site 698962000449 ATP binding site [chemical binding]; other site 698962000450 Q-loop/lid; other site 698962000451 ABC transporter signature motif; other site 698962000452 Walker B; other site 698962000453 D-loop; other site 698962000454 H-loop/switch region; other site 698962000455 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 698962000456 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 698962000457 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 698962000458 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 698962000459 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 698962000460 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 698962000461 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 698962000462 NAD(P) binding site [chemical binding]; other site 698962000463 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 698962000464 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 698962000465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962000466 homodimer interface [polypeptide binding]; other site 698962000467 catalytic residue [active] 698962000468 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 698962000469 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 698962000470 transmembrane helices; other site 698962000471 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 698962000472 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 698962000473 non-specific DNA binding site [nucleotide binding]; other site 698962000474 salt bridge; other site 698962000475 sequence-specific DNA binding site [nucleotide binding]; other site 698962000476 Domain of unknown function (DUF955); Region: DUF955; cl01076 698962000477 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 698962000478 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 698962000479 active site 698962000480 catalytic residues [active] 698962000481 DNA binding site [nucleotide binding] 698962000482 Int/Topo IB signature motif; other site 698962000483 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 698962000484 Domain of unknown function (DUF955); Region: DUF955; pfam06114 698962000485 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 698962000486 Prophage antirepressor [Transcription]; Region: COG3617 698962000487 BRO family, N-terminal domain; Region: Bro-N; smart01040 698962000488 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 698962000489 Helix-turn-helix domain; Region: HTH_17; pfam12728 698962000490 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 698962000491 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 698962000492 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 698962000493 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 698962000494 Phage tail repeat like; Region: PTR; pfam12789 698962000495 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 698962000496 amidase catalytic site [active] 698962000497 Zn binding residues [ion binding]; other site 698962000498 substrate binding site [chemical binding]; other site 698962000499 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cd01341 698962000500 nad+ binding pocket [chemical binding]; other site 698962000501 Diphtheria toxin, T domain; Region: Diphtheria_T; pfam02764 698962000502 Diphtheria toxin, R domain; Region: Diphtheria_R; pfam01324 698962000503 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 698962000504 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 698962000505 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 698962000506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962000507 DNA-binding site [nucleotide binding]; DNA binding site 698962000508 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 698962000509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962000510 homodimer interface [polypeptide binding]; other site 698962000511 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 698962000512 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 698962000513 active site 698962000514 multimer interface [polypeptide binding]; other site 698962000515 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 698962000516 predicted active site [active] 698962000517 catalytic triad [active] 698962000518 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 698962000519 active site 698962000520 catalytic site [active] 698962000521 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 698962000522 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 698962000523 active site 698962000524 catalytic site [active] 698962000525 Cna protein B-type domain; Region: Cna_B; pfam05738 698962000526 conserved repeat domain; Region: B_ant_repeat; TIGR01451 698962000527 Cna protein B-type domain; Region: Cna_B; pfam05738 698962000528 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962000529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962000530 HTH-like domain; Region: HTH_21; pfam13276 698962000531 Integrase core domain; Region: rve; pfam00665 698962000532 Integrase core domain; Region: rve_2; pfam13333 698962000533 Transposase; Region: HTH_Tnp_1; cl17663 698962000534 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 698962000535 prephenate dehydrogenase; Validated; Region: PRK08507 698962000536 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 698962000537 nucleoside/Zn binding site; other site 698962000538 dimer interface [polypeptide binding]; other site 698962000539 catalytic motif [active] 698962000540 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 698962000541 DNA binding residues [nucleotide binding] 698962000542 PIN domain; Region: PIN_3; pfam13470 698962000543 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 698962000544 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 698962000545 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 698962000546 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 698962000547 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 698962000548 active site 698962000549 HIGH motif; other site 698962000550 nucleotide binding site [chemical binding]; other site 698962000551 active site 698962000552 KMSKS motif; other site 698962000553 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 698962000554 fructuronate transporter; Provisional; Region: PRK10034; cl15264 698962000555 Shikimate kinase; Region: SKI; pfam01202 698962000556 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 698962000557 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 698962000558 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 698962000559 putative NAD(P) binding site [chemical binding]; other site 698962000560 catalytic Zn binding site [ion binding]; other site 698962000561 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 698962000562 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 698962000563 NADP binding site [chemical binding]; other site 698962000564 homodimer interface [polypeptide binding]; other site 698962000565 active site 698962000566 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 698962000567 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 698962000568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962000569 homodimer interface [polypeptide binding]; other site 698962000570 catalytic residue [active] 698962000571 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 698962000572 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 698962000573 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 698962000574 Walker A motif; other site 698962000575 ATP binding site [chemical binding]; other site 698962000576 Walker B motif; other site 698962000577 arginine finger; other site 698962000578 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 698962000579 hypothetical protein; Validated; Region: PRK00153 698962000580 recombination protein RecR; Reviewed; Region: recR; PRK00076 698962000581 RecR protein; Region: RecR; pfam02132 698962000582 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 698962000583 putative active site [active] 698962000584 putative metal-binding site [ion binding]; other site 698962000585 tetramer interface [polypeptide binding]; other site 698962000586 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 698962000587 catalytic triad [active] 698962000588 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 698962000589 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 698962000590 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 698962000591 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 698962000592 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 698962000593 active site 698962000594 catalytic site [active] 698962000595 substrate binding site [chemical binding]; other site 698962000596 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 698962000597 FMN binding site [chemical binding]; other site 698962000598 NADPH bind site [chemical binding]; other site 698962000599 2-isopropylmalate synthase; Validated; Region: PRK03739 698962000600 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 698962000601 active site 698962000602 catalytic residues [active] 698962000603 metal binding site [ion binding]; metal-binding site 698962000604 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 698962000605 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 698962000606 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 698962000607 DNA binding residues [nucleotide binding] 698962000608 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 698962000609 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962000610 active site 698962000611 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 698962000612 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962000613 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 698962000614 putative substrate translocation pore; other site 698962000615 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 698962000616 intersubunit interface [polypeptide binding]; other site 698962000617 active site 698962000618 catalytic residue [active] 698962000619 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 698962000620 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 698962000621 active site 698962000622 substrate binding site [chemical binding]; other site 698962000623 metal binding site [ion binding]; metal-binding site 698962000624 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; pfam04188 698962000625 aspartate kinase; Reviewed; Region: PRK06635 698962000626 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 698962000627 putative nucleotide binding site [chemical binding]; other site 698962000628 putative catalytic residues [active] 698962000629 putative Mg ion binding site [ion binding]; other site 698962000630 putative aspartate binding site [chemical binding]; other site 698962000631 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 698962000632 putative allosteric regulatory site; other site 698962000633 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 698962000634 putative allosteric regulatory residue; other site 698962000635 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 698962000636 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 698962000637 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 698962000638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 698962000639 Helix-turn-helix domain; Region: HTH_28; pfam13518 698962000640 HTH-like domain; Region: HTH_21; pfam13276 698962000641 Cna protein B-type domain; Region: Cna_B; pfam05738 698962000642 Cna protein B-type domain; Region: Cna_B; pfam05738 698962000643 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 698962000644 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 698962000645 active site 698962000646 catalytic site [active] 698962000647 Sortase C (SrtC) or subfamily-3 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_C_3; cd05827 698962000648 active site 698962000649 catalytic site [active] 698962000650 RNA polymerase sigma factor; Provisional; Region: PRK12535 698962000651 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962000652 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 698962000653 DNA binding residues [nucleotide binding] 698962000654 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 698962000655 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 698962000656 heme binding pocket [chemical binding]; other site 698962000657 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 698962000658 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 698962000659 Walker A/P-loop; other site 698962000660 ATP binding site [chemical binding]; other site 698962000661 Q-loop/lid; other site 698962000662 ABC transporter signature motif; other site 698962000663 Walker B; other site 698962000664 D-loop; other site 698962000665 H-loop/switch region; other site 698962000666 TOBE domain; Region: TOBE_2; pfam08402 698962000667 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 698962000668 dimer interface [polypeptide binding]; other site 698962000669 conserved gate region; other site 698962000670 ABC-ATPase subunit interface; other site 698962000671 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 698962000672 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 698962000673 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 698962000674 putative substrate translocation pore; other site 698962000675 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 698962000676 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962000677 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 698962000678 active site 698962000679 phosphorylation site [posttranslational modification] 698962000680 intermolecular recognition site; other site 698962000681 dimerization interface [polypeptide binding]; other site 698962000682 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 698962000683 DNA binding site [nucleotide binding] 698962000684 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962000685 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 698962000686 dimer interface [polypeptide binding]; other site 698962000687 phosphorylation site [posttranslational modification] 698962000688 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 698962000689 ATP binding site [chemical binding]; other site 698962000690 Mg2+ binding site [ion binding]; other site 698962000691 G-X-G motif; other site 698962000692 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 698962000693 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 698962000694 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12654 698962000695 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 698962000696 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 698962000697 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 698962000698 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 698962000699 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 698962000700 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 698962000701 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 698962000702 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 698962000703 Predicted membrane protein [Function unknown]; Region: COG1511 698962000704 Predicted membrane protein [Function unknown]; Region: COG1511 698962000705 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 698962000706 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 698962000707 putative active site [active] 698962000708 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 698962000709 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 698962000710 putative active site [active] 698962000711 putative metal binding site [ion binding]; other site 698962000712 Yqey-like protein; Region: YqeY; pfam09424 698962000713 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 698962000714 Transglycosylase; Region: Transgly; pfam00912 698962000715 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 698962000716 PASTA domain; Region: PASTA; pfam03793 698962000717 Transcription factor WhiB; Region: Whib; pfam02467 698962000718 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 698962000719 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 698962000720 homotrimer interaction site [polypeptide binding]; other site 698962000721 putative active site [active] 698962000722 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 698962000723 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 698962000724 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 698962000725 ligand binding site [chemical binding]; other site 698962000726 flexible hinge region; other site 698962000727 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 698962000728 putative switch regulator; other site 698962000729 non-specific DNA interactions [nucleotide binding]; other site 698962000730 DNA binding site [nucleotide binding] 698962000731 sequence specific DNA binding site [nucleotide binding]; other site 698962000732 putative cAMP binding site [chemical binding]; other site 698962000733 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 698962000734 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 698962000735 minor groove reading motif; other site 698962000736 helix-hairpin-helix signature motif; other site 698962000737 substrate binding pocket [chemical binding]; other site 698962000738 active site 698962000739 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 698962000740 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 698962000741 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 698962000742 catalytic residues [active] 698962000743 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 698962000744 putative active site [active] 698962000745 putative CoA binding site [chemical binding]; other site 698962000746 nudix motif; other site 698962000747 metal binding site [ion binding]; metal-binding site 698962000748 Colicin V production protein; Region: Colicin_V; pfam02674 698962000749 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 698962000750 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 698962000751 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 698962000752 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 698962000753 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 698962000754 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 698962000755 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 698962000756 motif II; other site 698962000757 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 698962000758 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 698962000759 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 698962000760 ATP binding site [chemical binding]; other site 698962000761 Walker A motif; other site 698962000762 hexamer interface [polypeptide binding]; other site 698962000763 Walker B motif; other site 698962000764 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 698962000765 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 698962000766 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 698962000767 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 698962000768 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 698962000769 ATP binding site [chemical binding]; other site 698962000770 putative Mg++ binding site [ion binding]; other site 698962000771 nucleotide binding region [chemical binding]; other site 698962000772 helicase superfamily c-terminal domain; Region: HELICc; smart00490 698962000773 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 698962000774 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 698962000775 DNA-binding site [nucleotide binding]; DNA binding site 698962000776 RNA-binding motif; other site 698962000777 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 698962000778 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962000779 Walker A/P-loop; other site 698962000780 ATP binding site [chemical binding]; other site 698962000781 Q-loop/lid; other site 698962000782 ABC transporter signature motif; other site 698962000783 Walker B; other site 698962000784 D-loop; other site 698962000785 H-loop/switch region; other site 698962000786 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962000787 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 698962000788 Walker A/P-loop; other site 698962000789 ATP binding site [chemical binding]; other site 698962000790 Q-loop/lid; other site 698962000791 ABC transporter signature motif; other site 698962000792 Walker B; other site 698962000793 D-loop; other site 698962000794 H-loop/switch region; other site 698962000795 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 698962000796 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962000797 putative substrate translocation pore; other site 698962000798 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 698962000799 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_3; cd08490 698962000800 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962000801 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 698962000802 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 698962000803 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 698962000804 dimer interface [polypeptide binding]; other site 698962000805 conserved gate region; other site 698962000806 putative PBP binding loops; other site 698962000807 ABC-ATPase subunit interface; other site 698962000808 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 698962000809 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 698962000810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962000811 NAD(P) binding site [chemical binding]; other site 698962000812 active site 698962000813 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 698962000814 DNA topoisomerase I, bacterial; Region: topA_bact; TIGR01051 698962000815 active site 698962000816 interdomain interaction site; other site 698962000817 putative metal-binding site [ion binding]; other site 698962000818 nucleotide binding site [chemical binding]; other site 698962000819 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 698962000820 domain I; other site 698962000821 DNA binding groove [nucleotide binding] 698962000822 phosphate binding site [ion binding]; other site 698962000823 domain II; other site 698962000824 domain III; other site 698962000825 nucleotide binding site [chemical binding]; other site 698962000826 catalytic site [active] 698962000827 domain IV; other site 698962000828 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]; Region: COG1754 698962000829 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 698962000830 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 698962000831 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 698962000832 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 698962000833 active site 698962000834 Predicted membrane protein [Function unknown]; Region: COG1297 698962000835 putative oligopeptide transporter, OPT family; Region: TIGR00733 698962000836 Laminin G domain; Region: Laminin_G_2; pfam02210 698962000837 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 698962000838 catalytic site [active] 698962000839 Asp-box motif; other site 698962000840 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 698962000841 dimerization interface [polypeptide binding]; other site 698962000842 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 698962000843 cyclase homology domain; Region: CHD; cd07302 698962000844 nucleotidyl binding site; other site 698962000845 metal binding site [ion binding]; metal-binding site 698962000846 dimer interface [polypeptide binding]; other site 698962000847 DNA polymerase III subunit delta'; Validated; Region: PRK07940 698962000848 DNA polymerase III subunit delta'; Validated; Region: PRK08485 698962000849 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 698962000850 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 698962000851 active site 698962000852 catalytic residues [active] 698962000853 DNA binding site [nucleotide binding] 698962000854 Int/Topo IB signature motif; other site 698962000855 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 698962000856 putative transposase OrfB; Reviewed; Region: PHA02517 698962000857 HTH-like domain; Region: HTH_21; pfam13276 698962000858 Integrase core domain; Region: rve; pfam00665 698962000859 Integrase core domain; Region: rve_2; pfam13333 698962000860 Helix-turn-helix domain; Region: HTH_28; pfam13518 698962000861 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962000862 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962000863 Integrase core domain; Region: rve; pfam00665 698962000864 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962000865 Integrase core domain; Region: rve; pfam00665 698962000866 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 698962000867 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 698962000868 Fic family protein [Function unknown]; Region: COG3177 698962000869 Fic/DOC family; Region: Fic; pfam02661 698962000870 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 698962000871 Trypsin; Region: Trypsin; pfam00089 698962000872 active site 698962000873 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962000874 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962000875 Integrase core domain; Region: rve; pfam00665 698962000876 potential frameshift: common BLAST hit: gi|172041139|ref|YP_001800853.1| transposase for insertion sequence 698962000877 acyl-CoA synthetase; Validated; Region: PRK07788 698962000878 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000879 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000881 acyl-activating enzyme (AAE) consensus motif; other site 698962000882 acyl-activating enzyme (AAE) consensus motif; other site 698962000883 AMP binding site [chemical binding]; other site 698962000884 active site 698962000885 CoA binding site [chemical binding]; other site 698962000886 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 698962000887 active site 698962000888 catalytic triad [active] 698962000889 oxyanion hole [active] 698962000890 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 698962000891 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 698962000892 substrate binding site; other site 698962000893 tetramer interface; other site 698962000894 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 698962000895 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 698962000896 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 698962000897 NADP binding site [chemical binding]; other site 698962000898 active site 698962000899 putative substrate binding site [chemical binding]; other site 698962000900 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 698962000901 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 698962000902 NAD binding site [chemical binding]; other site 698962000903 substrate binding site [chemical binding]; other site 698962000904 homodimer interface [polypeptide binding]; other site 698962000905 active site 698962000906 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 698962000907 Zn binding site [ion binding]; other site 698962000908 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 698962000909 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 698962000910 Putative esterase; Region: Esterase; pfam00756 698962000911 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 698962000912 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 698962000913 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962000914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 698962000915 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 698962000916 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 698962000917 non-specific DNA binding site [nucleotide binding]; other site 698962000918 salt bridge; other site 698962000919 sequence-specific DNA binding site [nucleotide binding]; other site 698962000920 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 698962000921 Domain of unknown function (DUF955); Region: DUF955; pfam06114 698962000922 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 698962000923 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 698962000924 putative Iron-sulfur protein interface [polypeptide binding]; other site 698962000925 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 698962000926 proximal heme binding site [chemical binding]; other site 698962000927 distal heme binding site [chemical binding]; other site 698962000928 putative dimer interface [polypeptide binding]; other site 698962000929 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 698962000930 L-aspartate oxidase; Provisional; Region: PRK06175 698962000931 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 698962000932 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 698962000933 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 698962000934 Predicted membrane protein [Function unknown]; Region: COG2733 698962000935 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 698962000936 Class I aldolases; Region: Aldolase_Class_I; cl17187 698962000937 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 698962000938 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 698962000939 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 698962000940 FeS/SAM binding site; other site 698962000941 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 698962000942 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 698962000943 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 698962000944 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 698962000945 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 698962000946 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 698962000947 FAD binding domain; Region: FAD_binding_4; pfam01565 698962000948 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 698962000949 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 698962000950 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000951 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000952 acyl-activating enzyme (AAE) consensus motif; other site 698962000953 AMP binding site [chemical binding]; other site 698962000954 active site 698962000955 CoA binding site [chemical binding]; other site 698962000956 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 698962000957 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000958 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962000959 acyl-activating enzyme (AAE) consensus motif; other site 698962000960 AMP binding site [chemical binding]; other site 698962000961 active site 698962000962 CoA binding site [chemical binding]; other site 698962000963 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 698962000964 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 698962000965 putative ADP-binding pocket [chemical binding]; other site 698962000966 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 698962000967 catalytic core [active] 698962000968 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 698962000969 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 698962000970 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 698962000971 dimer interface [polypeptide binding]; other site 698962000972 phosphorylation site [posttranslational modification] 698962000973 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 698962000974 ATP binding site [chemical binding]; other site 698962000975 Mg2+ binding site [ion binding]; other site 698962000976 G-X-G motif; other site 698962000977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962000978 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 698962000979 active site 698962000980 phosphorylation site [posttranslational modification] 698962000981 intermolecular recognition site; other site 698962000982 dimerization interface [polypeptide binding]; other site 698962000983 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 698962000984 DNA binding site [nucleotide binding] 698962000985 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 698962000986 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 698962000987 DNA binding domain, excisionase family; Region: excise; TIGR01764 698962000988 Thioredoxin; Region: Thioredoxin_4; cl17273 698962000989 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 698962000990 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 698962000991 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 698962000992 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 698962000993 motif II; other site 698962000994 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 698962000995 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 698962000996 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 698962000997 tRNA; other site 698962000998 putative tRNA binding site [nucleotide binding]; other site 698962000999 putative NADP binding site [chemical binding]; other site 698962001000 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 698962001001 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 698962001002 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 698962001003 domain interfaces; other site 698962001004 active site 698962001005 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 698962001006 active site 698962001007 homodimer interface [polypeptide binding]; other site 698962001008 SAM binding site [chemical binding]; other site 698962001009 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 698962001010 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 698962001011 active site 698962001012 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 698962001013 dimer interface [polypeptide binding]; other site 698962001014 active site 698962001015 Schiff base residues; other site 698962001016 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 698962001017 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 698962001018 Predicted membrane protein [Function unknown]; Region: COG2311 698962001019 Protein of unknown function (DUF418); Region: DUF418; pfam04235 698962001020 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 698962001021 substrate binding site [chemical binding]; other site 698962001022 active site 698962001023 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 698962001024 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 698962001025 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 698962001026 inhibitor-cofactor binding pocket; inhibition site 698962001027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962001028 catalytic residue [active] 698962001029 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 698962001030 catalytic core [active] 698962001031 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 698962001032 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 698962001033 catalytic residues [active] 698962001034 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 698962001035 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 698962001036 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 698962001037 ResB-like family; Region: ResB; pfam05140 698962001038 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 698962001039 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 698962001040 dimerization interface [polypeptide binding]; other site 698962001041 putative DNA binding site [nucleotide binding]; other site 698962001042 putative Zn2+ binding site [ion binding]; other site 698962001043 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 698962001044 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 698962001045 UbiA prenyltransferase family; Region: UbiA; pfam01040 698962001046 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962001047 active site 698962001048 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962001049 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 698962001050 acyl-activating enzyme (AAE) consensus motif; other site 698962001051 AMP binding site [chemical binding]; other site 698962001052 active site 698962001053 CoA binding site [chemical binding]; other site 698962001054 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 698962001055 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 698962001056 substrate binding site [chemical binding]; other site 698962001057 oxyanion hole (OAH) forming residues; other site 698962001058 trimer interface [polypeptide binding]; other site 698962001059 O-succinylbenzoate synthase; Provisional; Region: PRK02901 698962001060 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 698962001061 active site 698962001062 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 698962001063 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 698962001064 dimer interface [polypeptide binding]; other site 698962001065 tetramer interface [polypeptide binding]; other site 698962001066 PYR/PP interface [polypeptide binding]; other site 698962001067 TPP binding site [chemical binding]; other site 698962001068 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 698962001069 TPP-binding site; other site 698962001070 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 698962001071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 698962001072 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 698962001073 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 698962001074 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 698962001075 S-adenosylmethionine binding site [chemical binding]; other site 698962001076 A subgroup of L-lactate dehydrogenases; Region: LDH_3; cd05290 698962001077 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 698962001078 NAD binding site [chemical binding]; other site 698962001079 dimer interface [polypeptide binding]; other site 698962001080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 698962001081 substrate binding site [chemical binding]; other site 698962001082 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 698962001083 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 698962001084 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 698962001085 substrate binding pocket [chemical binding]; other site 698962001086 chain length determination region; other site 698962001087 substrate-Mg2+ binding site; other site 698962001088 catalytic residues [active] 698962001089 aspartate-rich region 1; other site 698962001090 active site lid residues [active] 698962001091 aspartate-rich region 2; other site 698962001092 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 698962001093 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 698962001094 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 698962001095 putative homodimer interface [polypeptide binding]; other site 698962001096 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 698962001097 heterodimer interface [polypeptide binding]; other site 698962001098 homodimer interface [polypeptide binding]; other site 698962001099 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 698962001100 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 698962001101 23S rRNA interface [nucleotide binding]; other site 698962001102 L7/L12 interface [polypeptide binding]; other site 698962001103 putative thiostrepton binding site; other site 698962001104 L25 interface [polypeptide binding]; other site 698962001105 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 698962001106 mRNA/rRNA interface [nucleotide binding]; other site 698962001107 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 698962001108 23S rRNA interface [nucleotide binding]; other site 698962001109 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 698962001110 50S ribosomal protein L7/L12; Reviewed; Region: rplL; PRK00157 698962001111 L11 interface [polypeptide binding]; other site 698962001112 putative EF-Tu interaction site [polypeptide binding]; other site 698962001113 putative EF-G interaction site [polypeptide binding]; other site 698962001114 anchored repeat ABC transporter, substrate-binding protein; Region: anch_rpt_subst; TIGR03772 698962001115 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 698962001116 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962001117 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 698962001118 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962001119 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 698962001120 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 698962001121 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 698962001122 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 698962001123 ABC-ATPase subunit interface; other site 698962001124 dimer interface [polypeptide binding]; other site 698962001125 putative PBP binding regions; other site 698962001126 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 698962001127 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962001128 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962001129 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 698962001130 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 698962001131 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 698962001132 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 698962001133 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 698962001134 RPB1 interaction site [polypeptide binding]; other site 698962001135 RPB10 interaction site [polypeptide binding]; other site 698962001136 RPB11 interaction site [polypeptide binding]; other site 698962001137 RPB3 interaction site [polypeptide binding]; other site 698962001138 RPB12 interaction site [polypeptide binding]; other site 698962001139 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 698962001140 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 698962001141 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 698962001142 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 698962001143 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 698962001144 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 698962001145 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 698962001146 G-loop; other site 698962001147 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 698962001148 DNA binding site [nucleotide binding] 698962001149 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 698962001150 Transposase; Region: DDE_Tnp_ISL3; pfam01610 698962001151 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 698962001152 potential frameshift: common BLAST hit: gi|172041139|ref|YP_001800853.1| transposase for insertion sequence 698962001153 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962001154 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962001155 Integrase core domain; Region: rve; pfam00665 698962001156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 698962001157 Histidine kinase; Region: HisKA_3; pfam07730 698962001158 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962001159 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 698962001160 active site 698962001161 phosphorylation site [posttranslational modification] 698962001162 intermolecular recognition site; other site 698962001163 dimerization interface [polypeptide binding]; other site 698962001164 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962001165 DNA binding residues [nucleotide binding] 698962001166 dimerization interface [polypeptide binding]; other site 698962001167 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962001168 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 698962001169 Walker A/P-loop; other site 698962001170 ATP binding site [chemical binding]; other site 698962001171 Q-loop/lid; other site 698962001172 ABC transporter signature motif; other site 698962001173 Walker B; other site 698962001174 D-loop; other site 698962001175 H-loop/switch region; other site 698962001176 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 698962001177 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 698962001178 TIGR03943 family protein; Region: TIGR03943 698962001179 Predicted permeases [General function prediction only]; Region: COG0701 698962001180 Radical SAM superfamily; Region: Radical_SAM; pfam04055 698962001181 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 698962001182 FeS/SAM binding site; other site 698962001183 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 698962001184 Class III ribonucleotide reductase; Region: RNR_III; cd01675 698962001185 effector binding site; other site 698962001186 active site 698962001187 Zn binding site [ion binding]; other site 698962001188 glycine loop; other site 698962001189 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 698962001190 S17 interaction site [polypeptide binding]; other site 698962001191 S8 interaction site; other site 698962001192 16S rRNA interaction site [nucleotide binding]; other site 698962001193 streptomycin interaction site [chemical binding]; other site 698962001194 23S rRNA interaction site [nucleotide binding]; other site 698962001195 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 698962001196 30S ribosomal protein S7; Validated; Region: PRK05302 698962001197 elongation factor G; Reviewed; Region: PRK00007 698962001198 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 698962001199 G1 box; other site 698962001200 putative GEF interaction site [polypeptide binding]; other site 698962001201 GTP/Mg2+ binding site [chemical binding]; other site 698962001202 Switch I region; other site 698962001203 G2 box; other site 698962001204 G3 box; other site 698962001205 Switch II region; other site 698962001206 G4 box; other site 698962001207 G5 box; other site 698962001208 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 698962001209 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 698962001210 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 698962001211 elongation factor Tu; Reviewed; Region: PRK00049 698962001212 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 698962001213 G1 box; other site 698962001214 GEF interaction site [polypeptide binding]; other site 698962001215 GTP/Mg2+ binding site [chemical binding]; other site 698962001216 Switch I region; other site 698962001217 G2 box; other site 698962001218 G3 box; other site 698962001219 Switch II region; other site 698962001220 G4 box; other site 698962001221 G5 box; other site 698962001222 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 698962001223 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 698962001224 Antibiotic Binding Site [chemical binding]; other site 698962001225 Predicted membrane protein [Function unknown]; Region: COG2323 698962001226 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 698962001227 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 698962001228 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 698962001229 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 698962001230 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 698962001231 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 698962001232 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 698962001233 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 698962001234 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 698962001235 putative translocon binding site; other site 698962001236 protein-rRNA interface [nucleotide binding]; other site 698962001237 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 698962001238 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 698962001239 G-X-X-G motif; other site 698962001240 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 698962001241 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 698962001242 23S rRNA interface [nucleotide binding]; other site 698962001243 5S rRNA interface [nucleotide binding]; other site 698962001244 putative antibiotic binding site [chemical binding]; other site 698962001245 L25 interface [polypeptide binding]; other site 698962001246 L27 interface [polypeptide binding]; other site 698962001247 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 698962001248 putative translocon interaction site; other site 698962001249 23S rRNA interface [nucleotide binding]; other site 698962001250 signal recognition particle (SRP54) interaction site; other site 698962001251 L23 interface [polypeptide binding]; other site 698962001252 trigger factor interaction site; other site 698962001253 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 698962001254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 698962001255 HlyD family secretion protein; Region: HlyD_3; pfam13437 698962001256 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962001257 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 698962001258 Walker A/P-loop; other site 698962001259 ATP binding site [chemical binding]; other site 698962001260 Q-loop/lid; other site 698962001261 ABC transporter signature motif; other site 698962001262 Walker B; other site 698962001263 D-loop; other site 698962001264 H-loop/switch region; other site 698962001265 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 698962001266 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 698962001267 FtsX-like permease family; Region: FtsX; pfam02687 698962001268 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 698962001269 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 698962001270 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 698962001271 RNA binding site [nucleotide binding]; other site 698962001272 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 698962001273 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 698962001274 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 698962001275 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 698962001276 serine transporter; Region: stp; TIGR00814 698962001277 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 698962001278 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 698962001279 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 698962001280 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 698962001281 active site 698962001282 homotetramer interface [polypeptide binding]; other site 698962001283 homodimer interface [polypeptide binding]; other site 698962001284 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK05597 698962001285 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 698962001286 ATP binding site [chemical binding]; other site 698962001287 substrate interface [chemical binding]; other site 698962001288 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 698962001289 active site residue [active] 698962001290 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 698962001291 MPT binding site; other site 698962001292 trimer interface [polypeptide binding]; other site 698962001293 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 698962001294 MoaE homodimer interface [polypeptide binding]; other site 698962001295 MoaD interaction [polypeptide binding]; other site 698962001296 active site residues [active] 698962001297 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 698962001298 MoaE interaction surface [polypeptide binding]; other site 698962001299 MoeB interaction surface [polypeptide binding]; other site 698962001300 thiocarboxylated glycine; other site 698962001301 Predicted transcriptional regulator [Transcription]; Region: COG2345 698962001302 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 698962001303 DNA binding residues [nucleotide binding] 698962001304 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 698962001305 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 698962001306 dimer interface [polypeptide binding]; other site 698962001307 conserved gate region; other site 698962001308 putative PBP binding loops; other site 698962001309 ABC-ATPase subunit interface; other site 698962001310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962001311 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 698962001312 Walker A/P-loop; other site 698962001313 ATP binding site [chemical binding]; other site 698962001314 Q-loop/lid; other site 698962001315 ABC transporter signature motif; other site 698962001316 Walker B; other site 698962001317 D-loop; other site 698962001318 H-loop/switch region; other site 698962001319 TOBE domain; Region: TOBE; cl01440 698962001320 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 698962001321 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 698962001322 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 698962001323 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 698962001324 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 698962001325 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 698962001326 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 698962001327 [4Fe-4S] binding site [ion binding]; other site 698962001328 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 698962001329 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 698962001330 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 698962001331 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 698962001332 molybdopterin cofactor binding site; other site 698962001333 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 698962001334 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 698962001335 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 698962001336 putative substrate translocation pore; other site 698962001337 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 698962001338 MPT binding site; other site 698962001339 trimer interface [polypeptide binding]; other site 698962001340 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 698962001341 GTP binding site; other site 698962001342 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 698962001343 trimer interface [polypeptide binding]; other site 698962001344 dimer interface [polypeptide binding]; other site 698962001345 putative active site [active] 698962001346 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 698962001347 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 698962001348 dimer interface [polypeptide binding]; other site 698962001349 putative functional site; other site 698962001350 putative MPT binding site; other site 698962001351 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 698962001352 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 698962001353 FeS/SAM binding site; other site 698962001354 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 698962001355 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 698962001356 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 698962001357 inhibitor site; inhibition site 698962001358 active site 698962001359 dimer interface [polypeptide binding]; other site 698962001360 catalytic residue [active] 698962001361 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 698962001362 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962001363 Walker A/P-loop; other site 698962001364 ATP binding site [chemical binding]; other site 698962001365 Q-loop/lid; other site 698962001366 ABC transporter signature motif; other site 698962001367 Walker B; other site 698962001368 D-loop; other site 698962001369 H-loop/switch region; other site 698962001370 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962001371 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 698962001372 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 698962001373 dimer interface [polypeptide binding]; other site 698962001374 conserved gate region; other site 698962001375 putative PBP binding loops; other site 698962001376 ABC-ATPase subunit interface; other site 698962001377 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 698962001378 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962001379 Walker A/P-loop; other site 698962001380 ATP binding site [chemical binding]; other site 698962001381 Q-loop/lid; other site 698962001382 ABC transporter signature motif; other site 698962001383 Walker B; other site 698962001384 D-loop; other site 698962001385 H-loop/switch region; other site 698962001386 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 698962001387 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962001388 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 698962001389 dimer interface [polypeptide binding]; other site 698962001390 conserved gate region; other site 698962001391 putative PBP binding loops; other site 698962001392 ABC-ATPase subunit interface; other site 698962001393 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 698962001394 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 698962001395 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 698962001396 Transcriptional regulators [Transcription]; Region: FadR; COG2186 698962001397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962001398 DNA-binding site [nucleotide binding]; DNA binding site 698962001399 FCD domain; Region: FCD; pfam07729 698962001400 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 698962001401 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 698962001402 nucleotide binding site [chemical binding]; other site 698962001403 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 698962001404 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 698962001405 putative active site cavity [active] 698962001406 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 698962001407 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 698962001408 active site 698962001409 dimer interface [polypeptide binding]; other site 698962001410 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 698962001411 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 698962001412 active site 698962001413 trimer interface [polypeptide binding]; other site 698962001414 allosteric site; other site 698962001415 active site lid [active] 698962001416 hexamer (dimer of trimers) interface [polypeptide binding]; other site 698962001417 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 698962001418 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 698962001419 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 698962001420 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 698962001421 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 698962001422 5S rRNA interface [nucleotide binding]; other site 698962001423 L27 interface [polypeptide binding]; other site 698962001424 23S rRNA interface [nucleotide binding]; other site 698962001425 L5 interface [polypeptide binding]; other site 698962001426 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 698962001427 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 698962001428 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 698962001429 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 698962001430 23S rRNA binding site [nucleotide binding]; other site 698962001431 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 698962001432 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 698962001433 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 698962001434 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins; Region: AmyAc_OligoGlu_TS; cd11332 698962001435 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 698962001436 active site 698962001437 catalytic site [active] 698962001438 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 698962001439 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 698962001440 active site 698962001441 catalytic site [active] 698962001442 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 698962001443 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 698962001444 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 698962001445 dimer interface [polypeptide binding]; other site 698962001446 conserved gate region; other site 698962001447 putative PBP binding loops; other site 698962001448 ABC-ATPase subunit interface; other site 698962001449 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 698962001450 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 698962001451 dimer interface [polypeptide binding]; other site 698962001452 conserved gate region; other site 698962001453 putative PBP binding loops; other site 698962001454 ABC-ATPase subunit interface; other site 698962001455 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 698962001456 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 698962001457 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 698962001458 Walker A/P-loop; other site 698962001459 ATP binding site [chemical binding]; other site 698962001460 Q-loop/lid; other site 698962001461 ABC transporter signature motif; other site 698962001462 Walker B; other site 698962001463 D-loop; other site 698962001464 H-loop/switch region; other site 698962001465 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 698962001466 SecY translocase; Region: SecY; pfam00344 698962001467 adenylate kinase; Reviewed; Region: adk; PRK00279 698962001468 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 698962001469 AMP-binding site [chemical binding]; other site 698962001470 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 698962001471 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 698962001472 active site 698962001473 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 698962001474 catalytic site [active] 698962001475 BNR repeat-like domain; Region: BNR_2; pfam13088 698962001476 Asp-box motif; other site 698962001477 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 698962001478 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 698962001479 rRNA binding site [nucleotide binding]; other site 698962001480 predicted 30S ribosome binding site; other site 698962001481 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 698962001482 30S ribosomal protein S13; Region: bact_S13; TIGR03631 698962001483 30S ribosomal protein S11; Validated; Region: PRK05309 698962001484 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 698962001485 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 698962001486 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 698962001487 RNA binding surface [nucleotide binding]; other site 698962001488 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 698962001489 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 698962001490 alphaNTD - beta interaction site [polypeptide binding]; other site 698962001491 alphaNTD homodimer interface [polypeptide binding]; other site 698962001492 alphaNTD - beta' interaction site [polypeptide binding]; other site 698962001493 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 698962001494 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 698962001495 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 698962001496 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 698962001497 dimerization interface 3.5A [polypeptide binding]; other site 698962001498 active site 698962001499 Protein of unknown function (DUF690); Region: DUF690; cl04939 698962001500 TIGR02611 family protein; Region: TIGR02611 698962001501 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 698962001502 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 698962001503 active site 698962001504 catalytic residues [active] 698962001505 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 698962001506 potential frameshift: common BLAST hit: gi|38233165|ref|NP_938932.1| FtsK/SpoIIIE family ATP-binding protein 698962001507 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 698962001508 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 698962001509 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 698962001510 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 698962001511 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 698962001512 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 698962001513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 698962001514 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 698962001515 Integrase core domain; Region: rve; pfam00665 698962001516 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 698962001517 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 698962001518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 698962001519 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 698962001520 23S rRNA interface [nucleotide binding]; other site 698962001521 L3 interface [polypeptide binding]; other site 698962001522 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 698962001523 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 698962001524 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 698962001525 active site 698962001526 substrate binding site [chemical binding]; other site 698962001527 metal binding site [ion binding]; metal-binding site 698962001528 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 698962001529 alanine racemase; Reviewed; Region: alr; PRK00053 698962001530 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 698962001531 active site 698962001532 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 698962001533 dimer interface [polypeptide binding]; other site 698962001534 substrate binding site [chemical binding]; other site 698962001535 catalytic residues [active] 698962001536 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 698962001537 Predicted permease [General function prediction only]; Region: COG2985 698962001538 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 698962001539 TrkA-C domain; Region: TrkA_C; pfam02080 698962001540 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 698962001541 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 698962001542 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 698962001543 Glycoprotease family; Region: Peptidase_M22; pfam00814 698962001544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962001545 Coenzyme A binding pocket [chemical binding]; other site 698962001546 UGMP family protein; Validated; Region: PRK09604 698962001547 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 698962001548 oligomerisation interface [polypeptide binding]; other site 698962001549 mobile loop; other site 698962001550 roof hairpin; other site 698962001551 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 698962001552 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 698962001553 ring oligomerisation interface [polypeptide binding]; other site 698962001554 ATP/Mg binding site [chemical binding]; other site 698962001555 stacking interactions; other site 698962001556 hinge regions; other site 698962001557 potential frameshift: common BLAST hit: gi|38233186|ref|NP_938953.1| RNA polymerase sigma factor SigD 698962001558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962001559 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 698962001560 DNA binding residues [nucleotide binding] 698962001561 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 698962001562 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 698962001563 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 698962001564 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 698962001565 active site 698962001566 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 698962001567 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 698962001568 phosphate binding site [ion binding]; other site 698962001569 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 698962001570 siderophore binding site; other site 698962001571 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 698962001572 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 698962001573 dimer interface [polypeptide binding]; other site 698962001574 putative PBP binding regions; other site 698962001575 ABC-ATPase subunit interface; other site 698962001576 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 698962001577 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 698962001578 ABC-ATPase subunit interface; other site 698962001579 dimer interface [polypeptide binding]; other site 698962001580 putative PBP binding regions; other site 698962001581 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962001582 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 698962001583 Walker A/P-loop; other site 698962001584 ATP binding site [chemical binding]; other site 698962001585 Q-loop/lid; other site 698962001586 ABC transporter signature motif; other site 698962001587 Walker B; other site 698962001588 D-loop; other site 698962001589 H-loop/switch region; other site 698962001590 H+ Antiporter protein; Region: 2A0121; TIGR00900 698962001591 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 698962001592 EamA-like transporter family; Region: EamA; pfam00892 698962001593 GMP synthase; Reviewed; Region: guaA; PRK00074 698962001594 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 698962001595 AMP/PPi binding site [chemical binding]; other site 698962001596 candidate oxyanion hole; other site 698962001597 catalytic triad [active] 698962001598 potential glutamine specificity residues [chemical binding]; other site 698962001599 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 698962001600 ATP Binding subdomain [chemical binding]; other site 698962001601 Ligand Binding sites [chemical binding]; other site 698962001602 Dimerization subdomain; other site 698962001603 PspC domain; Region: PspC; pfam04024 698962001604 PspC domain; Region: PspC; pfam04024 698962001605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 698962001606 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 698962001607 ATP binding site [chemical binding]; other site 698962001608 Mg2+ binding site [ion binding]; other site 698962001609 G-X-G motif; other site 698962001610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962001611 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 698962001612 active site 698962001613 phosphorylation site [posttranslational modification] 698962001614 intermolecular recognition site; other site 698962001615 dimerization interface [polypeptide binding]; other site 698962001616 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962001617 DNA binding residues [nucleotide binding] 698962001618 dimerization interface [polypeptide binding]; other site 698962001619 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 698962001620 intersubunit interface [polypeptide binding]; other site 698962001621 DNA Polymerase Y-family; Region: PolY_like; cd03468 698962001622 active site 698962001623 DNA binding site [nucleotide binding] 698962001624 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 698962001625 putative dimer interface [polypeptide binding]; other site 698962001626 putative [2Fe-2S] cluster binding site [ion binding]; other site 698962001627 Mechanosensitive ion channel; Region: MS_channel; pfam00924 698962001628 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 698962001629 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 698962001630 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 698962001631 dimer interface [polypeptide binding]; other site 698962001632 conserved gate region; other site 698962001633 ABC-ATPase subunit interface; other site 698962001634 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 698962001635 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 698962001636 Walker A/P-loop; other site 698962001637 ATP binding site [chemical binding]; other site 698962001638 Q-loop/lid; other site 698962001639 ABC transporter signature motif; other site 698962001640 Walker B; other site 698962001641 D-loop; other site 698962001642 H-loop/switch region; other site 698962001643 NIL domain; Region: NIL; cl09633 698962001644 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 698962001645 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 698962001646 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 698962001647 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 698962001648 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 698962001649 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 698962001650 active site 698962001651 PHP Thumb interface [polypeptide binding]; other site 698962001652 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 698962001653 generic binding surface II; other site 698962001654 generic binding surface I; other site 698962001655 Uncharacterized conserved protein [Function unknown]; Region: COG3402 698962001656 Predicted membrane protein [Function unknown]; Region: COG3428 698962001657 Bacterial PH domain; Region: DUF304; pfam03703 698962001658 Bacterial PH domain; Region: DUF304; pfam03703 698962001659 Bacterial PH domain; Region: DUF304; pfam03703 698962001660 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 698962001661 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 698962001662 intersubunit interface [polypeptide binding]; other site 698962001663 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 698962001664 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 698962001665 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 698962001666 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 698962001667 dimer interface [polypeptide binding]; other site 698962001668 putative PBP binding regions; other site 698962001669 ABC-ATPase subunit interface; other site 698962001670 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 698962001671 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 698962001672 ABC-ATPase subunit interface; other site 698962001673 dimer interface [polypeptide binding]; other site 698962001674 putative PBP binding regions; other site 698962001675 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 698962001676 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 698962001677 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 698962001678 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 698962001679 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 698962001680 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 698962001681 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 698962001682 homodimer interface [polypeptide binding]; other site 698962001683 NADP binding site [chemical binding]; other site 698962001684 substrate binding site [chemical binding]; other site 698962001685 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 698962001686 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962001687 active site 698962001688 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 698962001689 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 698962001690 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 698962001691 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 698962001692 intersubunit interface [polypeptide binding]; other site 698962001693 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 698962001694 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 698962001695 ABC-ATPase subunit interface; other site 698962001696 dimer interface [polypeptide binding]; other site 698962001697 putative PBP binding regions; other site 698962001698 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 698962001699 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 698962001700 Walker A/P-loop; other site 698962001701 ATP binding site [chemical binding]; other site 698962001702 Q-loop/lid; other site 698962001703 ABC transporter signature motif; other site 698962001704 Walker B; other site 698962001705 D-loop; other site 698962001706 H-loop/switch region; other site 698962001707 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05613 698962001708 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 698962001709 homodimer interface [polypeptide binding]; other site 698962001710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962001711 substrate-cofactor binding pocket; other site 698962001712 catalytic residue [active] 698962001713 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 698962001714 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 698962001715 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 698962001716 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 698962001717 putative substrate translocation pore; other site 698962001718 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 698962001719 putative catalytic site [active] 698962001720 putative metal binding site [ion binding]; other site 698962001721 putative phosphate binding site [ion binding]; other site 698962001722 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 698962001723 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 698962001724 active site 698962001725 HIGH motif; other site 698962001726 dimer interface [polypeptide binding]; other site 698962001727 KMSKS motif; other site 698962001728 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 698962001729 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 698962001730 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 698962001731 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 698962001732 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 698962001733 NlpC/P60 family; Region: NLPC_P60; pfam00877 698962001734 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962001735 active site 698962001736 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 698962001737 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 698962001738 non-specific DNA binding site [nucleotide binding]; other site 698962001739 salt bridge; other site 698962001740 sequence-specific DNA binding site [nucleotide binding]; other site 698962001741 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 698962001742 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 698962001743 metal binding site [ion binding]; metal-binding site 698962001744 putative dimer interface [polypeptide binding]; other site 698962001745 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 698962001746 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 698962001747 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962001748 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 698962001749 pyruvate carboxylase; Reviewed; Region: PRK12999 698962001750 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 698962001751 ATP-grasp domain; Region: ATP-grasp_4; cl17255 698962001752 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 698962001753 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 698962001754 active site 698962001755 catalytic residues [active] 698962001756 metal binding site [ion binding]; metal-binding site 698962001757 homodimer binding site [polypeptide binding]; other site 698962001758 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 698962001759 carboxyltransferase (CT) interaction site; other site 698962001760 biotinylation site [posttranslational modification]; other site 698962001761 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 698962001762 ADP-ribose binding site [chemical binding]; other site 698962001763 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 698962001764 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 698962001765 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 698962001766 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 698962001767 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 698962001768 carboxyltransferase (CT) interaction site; other site 698962001769 biotinylation site [posttranslational modification]; other site 698962001770 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 698962001771 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 698962001772 active site residue [active] 698962001773 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 698962001774 active site residue [active] 698962001775 potential frameshift: common BLAST hit: gi|62389593|ref|YP_224995.1| lipopolysaccharide biosynthesis acyltransferase, m 698962001776 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 698962001777 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 698962001778 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 698962001779 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 698962001780 active site 698962001781 dimer interface [polypeptide binding]; other site 698962001782 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 698962001783 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 698962001784 substrate binding site [chemical binding]; other site 698962001785 dimer interface [polypeptide binding]; other site 698962001786 ATP binding site [chemical binding]; other site 698962001787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 698962001788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 698962001789 DNA binding site [nucleotide binding] 698962001790 domain linker motif; other site 698962001791 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 698962001792 dimerization interface [polypeptide binding]; other site 698962001793 putative ligand binding site [chemical binding]; other site 698962001794 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 698962001795 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 698962001796 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 698962001797 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 698962001798 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 698962001799 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 698962001800 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 698962001801 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 698962001802 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 698962001803 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 698962001804 ATP-grasp domain; Region: ATP-grasp; pfam02222 698962001805 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 698962001806 Uncharacterized conserved protein [Function unknown]; Region: COG1434 698962001807 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 698962001808 putative active site [active] 698962001809 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 698962001810 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 698962001811 HupF/HypC family; Region: HupF_HypC; pfam01455 698962001812 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 698962001813 dimerization interface [polypeptide binding]; other site 698962001814 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 698962001815 ATP binding site [chemical binding]; other site 698962001816 Acylphosphatase; Region: Acylphosphatase; pfam00708 698962001817 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 698962001818 HypF finger; Region: zf-HYPF; pfam07503 698962001819 HypF finger; Region: zf-HYPF; pfam07503 698962001820 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 698962001821 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 698962001822 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 698962001823 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 698962001824 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 698962001825 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 698962001826 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 698962001827 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 698962001828 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 698962001829 putative substrate-binding site; other site 698962001830 nickel binding site [ion binding]; other site 698962001831 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 698962001832 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 698962001833 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 698962001834 HupF/HypC family; Region: HupF_HypC; cl00394 698962001835 TIGR03089 family protein; Region: TIGR03089 698962001836 Transcriptional regulator [Transcription]; Region: LytR; COG1316 698962001837 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 698962001838 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 698962001839 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 698962001840 active site 698962001841 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 698962001842 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 698962001843 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 698962001844 active site 698962001845 Substrate binding site; other site 698962001846 Mg++ binding site; other site 698962001847 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962001848 putative trimer interface [polypeptide binding]; other site 698962001849 putative CoA binding site [chemical binding]; other site 698962001850 Transcription factor WhiB; Region: Whib; pfam02467 698962001851 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 698962001852 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 698962001853 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 698962001854 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 698962001855 active site 698962001856 substrate binding site [chemical binding]; other site 698962001857 metal binding site [ion binding]; metal-binding site 698962001858 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 698962001859 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 698962001860 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 698962001861 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 698962001862 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 698962001863 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 698962001864 homotetramer interface [polypeptide binding]; other site 698962001865 ligand binding site [chemical binding]; other site 698962001866 catalytic site [active] 698962001867 NAD binding site [chemical binding]; other site 698962001868 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 698962001869 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 698962001870 TMP-binding site; other site 698962001871 ATP-binding site [chemical binding]; other site 698962001872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962001873 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 698962001874 active site 698962001875 phosphorylation site [posttranslational modification] 698962001876 intermolecular recognition site; other site 698962001877 dimerization interface [polypeptide binding]; other site 698962001878 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 698962001879 DNA binding site [nucleotide binding] 698962001880 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962001881 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 698962001882 dimerization interface [polypeptide binding]; other site 698962001883 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 698962001884 dimer interface [polypeptide binding]; other site 698962001885 phosphorylation site [posttranslational modification] 698962001886 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 698962001887 ATP binding site [chemical binding]; other site 698962001888 Mg2+ binding site [ion binding]; other site 698962001889 G-X-G motif; other site 698962001890 lipoprotein LpqB; Provisional; Region: PRK13616 698962001891 Sporulation and spore germination; Region: Germane; pfam10646 698962001892 comF family protein; Region: comF; TIGR00201 698962001893 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962001894 active site 698962001895 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 698962001896 30S subunit binding site; other site 698962001897 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 698962001898 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 698962001899 ATP binding site [chemical binding]; other site 698962001900 putative Mg++ binding site [ion binding]; other site 698962001901 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 698962001902 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 698962001903 nucleotide binding region [chemical binding]; other site 698962001904 ATP-binding site [chemical binding]; other site 698962001905 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 698962001906 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 698962001907 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 698962001908 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 698962001909 FAD binding pocket [chemical binding]; other site 698962001910 FAD binding motif [chemical binding]; other site 698962001911 phosphate binding motif [ion binding]; other site 698962001912 beta-alpha-beta structure motif; other site 698962001913 NAD binding pocket [chemical binding]; other site 698962001914 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 698962001915 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 698962001916 catalytic loop [active] 698962001917 iron binding site [ion binding]; other site 698962001918 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 698962001919 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 698962001920 putative di-iron ligands [ion binding]; other site 698962001921 Predicted GTPases [General function prediction only]; Region: COG1162 698962001922 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 698962001923 GTPase/Zn-binding domain interface [polypeptide binding]; other site 698962001924 GTP/Mg2+ binding site [chemical binding]; other site 698962001925 G4 box; other site 698962001926 G5 box; other site 698962001927 G1 box; other site 698962001928 Switch I region; other site 698962001929 G2 box; other site 698962001930 G3 box; other site 698962001931 Switch II region; other site 698962001932 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 698962001933 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 698962001934 hinge; other site 698962001935 active site 698962001936 Uncharacterized conserved protein [Function unknown]; Region: COG2135 698962001937 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 698962001938 putative deacylase active site [active] 698962001939 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 698962001940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962001941 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 698962001942 DNA binding residues [nucleotide binding] 698962001943 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 698962001944 Transcription factor WhiB; Region: Whib; pfam02467 698962001945 PQQ-like domain; Region: PQQ_2; pfam13360 698962001946 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 698962001947 DEAD-like helicases superfamily; Region: DEXDc; smart00487 698962001948 ATP binding site [chemical binding]; other site 698962001949 putative Mg++ binding site [ion binding]; other site 698962001950 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 698962001951 nucleotide binding region [chemical binding]; other site 698962001952 ATP-binding site [chemical binding]; other site 698962001953 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 698962001954 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 698962001955 TIGR02569 family protein; Region: TIGR02569_actnb 698962001956 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 698962001957 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 698962001958 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 698962001959 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 698962001960 Part of AAA domain; Region: AAA_19; pfam13245 698962001961 Family description; Region: UvrD_C_2; pfam13538 698962001962 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 698962001963 Ion channel; Region: Ion_trans_2; pfam07885 698962001964 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 698962001965 TrkA-N domain; Region: TrkA_N; pfam02254 698962001966 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 698962001967 putative NADH binding site [chemical binding]; other site 698962001968 putative active site [active] 698962001969 nudix motif; other site 698962001970 putative metal binding site [ion binding]; other site 698962001971 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 698962001972 Part of AAA domain; Region: AAA_19; pfam13245 698962001973 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 698962001974 Family description; Region: UvrD_C_2; pfam13538 698962001975 HRDC domain; Region: HRDC; pfam00570 698962001976 Protein of unknown function DUF45; Region: DUF45; cl00636 698962001977 putative hydrolase; Region: TIGR03624 698962001978 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 698962001979 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 698962001980 hypothetical protein; Validated; Region: PRK00068 698962001981 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 698962001982 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962001983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962001984 HTH-like domain; Region: HTH_21; pfam13276 698962001985 Integrase core domain; Region: rve; pfam00665 698962001986 Integrase core domain; Region: rve_2; pfam13333 698962001987 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 698962001988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962001989 Walker A/P-loop; other site 698962001990 ATP binding site [chemical binding]; other site 698962001991 Q-loop/lid; other site 698962001992 ABC transporter signature motif; other site 698962001993 Walker B; other site 698962001994 D-loop; other site 698962001995 H-loop/switch region; other site 698962001996 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962001997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962001998 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962001999 potential frameshift: common BLAST hit: gi|68535288|ref|YP_249993.1| transposase IS3510a 698962002000 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962002001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962002002 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962002003 Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]; Region: TolA; COG3064 698962002004 Integrase core domain; Region: rve; pfam00665 698962002005 potential frameshift: common BLAST hit: gi|172041642|ref|YP_001801356.1| transposase for insertion sequence 698962002006 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962002007 potential frameshift: common BLAST hit: gi|38233440|ref|NP_939207.1| transposase 698962002008 Integrase core domain; Region: rve_2; pfam13333 698962002009 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962002010 HTH-like domain; Region: HTH_21; pfam13276 698962002011 Integrase core domain; Region: rve; pfam00665 698962002012 Abi-like protein; Region: Abi_2; pfam07751 698962002013 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 698962002014 FIC domain binding interface [polypeptide binding]; other site 698962002015 Fic/DOC family; Region: Fic; cl00960 698962002016 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 698962002017 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 698962002018 P-loop; other site 698962002019 Magnesium ion binding site [ion binding]; other site 698962002020 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962002021 HTH-like domain; Region: HTH_21; pfam13276 698962002022 Integrase core domain; Region: rve; pfam00665 698962002023 Integrase core domain; Region: rve_2; pfam13333 698962002024 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 698962002025 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 698962002026 active site 698962002027 Protein of unknown function (DUF418); Region: DUF418; cl12135 698962002028 oxaloacetate decarboxylase; Provisional; Region: PRK12330 698962002029 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 698962002030 active site 698962002031 catalytic residues [active] 698962002032 metal binding site [ion binding]; metal-binding site 698962002033 homodimer binding site [polypeptide binding]; other site 698962002034 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 698962002035 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 698962002036 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 698962002037 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 698962002038 carboxyltransferase (CT) interaction site; other site 698962002039 biotinylation site [posttranslational modification]; other site 698962002040 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 698962002041 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 698962002042 active site 698962002043 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 698962002044 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 698962002045 active site 698962002046 peptide chain release factor 2; Validated; Region: prfB; PRK00578 698962002047 This domain is found in peptide chain release factors; Region: PCRF; smart00937 698962002048 RF-1 domain; Region: RF-1; pfam00472 698962002049 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 698962002050 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962002051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962002052 HTH-like domain; Region: HTH_21; pfam13276 698962002053 Integrase core domain; Region: rve; pfam00665 698962002054 Integrase core domain; Region: rve_2; pfam13333 698962002055 Cupin domain; Region: Cupin_2; cl17218 698962002056 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 698962002057 SmpB-tmRNA interface; other site 698962002058 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 698962002059 FtsX-like permease family; Region: FtsX; pfam02687 698962002060 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 698962002061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002062 Walker A/P-loop; other site 698962002063 ATP binding site [chemical binding]; other site 698962002064 Q-loop/lid; other site 698962002065 ABC transporter signature motif; other site 698962002066 Walker B; other site 698962002067 D-loop; other site 698962002068 H-loop/switch region; other site 698962002069 AbgT putative transporter family; Region: ABG_transport; cl17431 698962002070 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962002071 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962002072 HTH-like domain; Region: HTH_21; pfam13276 698962002073 Integrase core domain; Region: rve; pfam00665 698962002074 Integrase core domain; Region: rve_2; pfam13333 698962002075 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 698962002076 putative transposase OrfB; Reviewed; Region: PHA02517 698962002077 Integrase core domain; Region: rve; pfam00665 698962002078 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962002079 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962002080 Integrase core domain; Region: rve; pfam00665 698962002081 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962002082 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 698962002083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962002084 aminotransferase; Validated; Region: PRK07777 698962002085 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 698962002086 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 698962002087 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 698962002088 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 698962002089 nucleotide binding region [chemical binding]; other site 698962002090 ATP-binding site [chemical binding]; other site 698962002091 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 698962002092 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 698962002093 Protein of unknown function (DUF3235); Region: DUF3235; pfam11574 698962002094 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 698962002095 DNA-binding site [nucleotide binding]; DNA binding site 698962002096 RNA-binding motif; other site 698962002097 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962002098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962002099 HTH-like domain; Region: HTH_21; pfam13276 698962002100 Integrase core domain; Region: rve; pfam00665 698962002101 Integrase core domain; Region: rve_2; pfam13333 698962002102 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 698962002103 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 698962002104 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 698962002105 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 698962002106 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 698962002107 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 698962002108 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 698962002109 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 698962002110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 698962002111 catalytic residue [active] 698962002112 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 698962002113 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 698962002114 dimer interface [polypeptide binding]; other site 698962002115 active site 698962002116 citrylCoA binding site [chemical binding]; other site 698962002117 NADH binding [chemical binding]; other site 698962002118 cationic pore residues; other site 698962002119 oxalacetate/citrate binding site [chemical binding]; other site 698962002120 coenzyme A binding site [chemical binding]; other site 698962002121 catalytic triad [active] 698962002122 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 698962002123 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 698962002124 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 698962002125 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 698962002126 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 698962002127 active site 698962002128 catalytic tetrad [active] 698962002129 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 698962002130 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 698962002131 substrate binding site [chemical binding]; other site 698962002132 oxyanion hole (OAH) forming residues; other site 698962002133 trimer interface [polypeptide binding]; other site 698962002134 Protein of unknown function, DUF485; Region: DUF485; pfam04341 698962002135 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 698962002136 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 698962002137 Na binding site [ion binding]; other site 698962002138 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 698962002139 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 698962002140 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 698962002141 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 698962002142 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 698962002143 active site 698962002144 SAM binding site [chemical binding]; other site 698962002145 homodimer interface [polypeptide binding]; other site 698962002146 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 698962002147 catalytic residues [active] 698962002148 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 698962002149 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 698962002150 folate binding site [chemical binding]; other site 698962002151 NADP+ binding site [chemical binding]; other site 698962002152 thymidylate synthase; Reviewed; Region: thyA; PRK01827 698962002153 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 698962002154 dimerization interface [polypeptide binding]; other site 698962002155 active site 698962002156 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 698962002157 active site 698962002158 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 698962002159 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 698962002160 ATP binding site [chemical binding]; other site 698962002161 putative Mg++ binding site [ion binding]; other site 698962002162 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 698962002163 nucleotide binding region [chemical binding]; other site 698962002164 ATP-binding site [chemical binding]; other site 698962002165 DEAD/H associated; Region: DEAD_assoc; pfam08494 698962002166 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 698962002167 active site 698962002168 SUMO-1 interface [polypeptide binding]; other site 698962002169 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 698962002170 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 698962002171 putative DNA binding site [nucleotide binding]; other site 698962002172 catalytic residue [active] 698962002173 putative H2TH interface [polypeptide binding]; other site 698962002174 putative catalytic residues [active] 698962002175 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 698962002176 Predicted permease [General function prediction only]; Region: COG2985 698962002177 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 698962002178 TrkA-C domain; Region: TrkA_C; pfam02080 698962002179 TrkA-C domain; Region: TrkA_C; pfam02080 698962002180 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 698962002181 hypothetical protein; Provisional; Region: PRK11770 698962002182 Domain of unknown function (DUF307); Region: DUF307; pfam03733 698962002183 Domain of unknown function (DUF307); Region: DUF307; pfam03733 698962002184 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 698962002185 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 698962002186 active site 698962002187 dimer interface [polypeptide binding]; other site 698962002188 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 698962002189 dimer interface [polypeptide binding]; other site 698962002190 active site 698962002191 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 698962002192 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 698962002193 tetramerization interface [polypeptide binding]; other site 698962002194 NAD(P) binding site [chemical binding]; other site 698962002195 catalytic residues [active] 698962002196 hypothetical protein; Provisional; Region: PRK07857 698962002197 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 698962002198 Part of AAA domain; Region: AAA_19; pfam13245 698962002199 Family description; Region: UvrD_C_2; pfam13538 698962002200 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 698962002201 Peptidase family M23; Region: Peptidase_M23; pfam01551 698962002202 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 698962002203 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 698962002204 active site 698962002205 substrate binding site [chemical binding]; other site 698962002206 cosubstrate binding site; other site 698962002207 catalytic site [active] 698962002208 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 698962002209 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 698962002210 purine monophosphate binding site [chemical binding]; other site 698962002211 dimer interface [polypeptide binding]; other site 698962002212 putative catalytic residues [active] 698962002213 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 698962002214 Late expression factor 8 (LEF-8); Region: LEF-8; pfam04941 698962002215 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 698962002216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962002217 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962002218 Domain of unknown function (DUF2014); Region: DUF2014; pfam09427 698962002219 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 698962002220 30S ribosomal protein S18; Provisional; Region: PRK13401 698962002221 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 698962002222 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 698962002223 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 698962002224 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 698962002225 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 698962002226 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962002227 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 698962002228 active site 698962002229 phosphorylation site [posttranslational modification] 698962002230 intermolecular recognition site; other site 698962002231 dimerization interface [polypeptide binding]; other site 698962002232 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 698962002233 DNA binding site [nucleotide binding] 698962002234 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 698962002235 dimerization interface [polypeptide binding]; other site 698962002236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962002237 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 698962002238 dimer interface [polypeptide binding]; other site 698962002239 phosphorylation site [posttranslational modification] 698962002240 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 698962002241 ATP binding site [chemical binding]; other site 698962002242 Mg2+ binding site [ion binding]; other site 698962002243 G-X-G motif; other site 698962002244 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 698962002245 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 698962002246 protein binding site [polypeptide binding]; other site 698962002247 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 698962002248 MPT binding site; other site 698962002249 trimer interface [polypeptide binding]; other site 698962002250 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 698962002251 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 698962002252 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 698962002253 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 698962002254 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 698962002255 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 698962002256 active site 698962002257 tetramer interface; other site 698962002258 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 698962002259 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 698962002260 dimer interface [polypeptide binding]; other site 698962002261 putative functional site; other site 698962002262 putative MPT binding site; other site 698962002263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 698962002264 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 698962002265 Predicted membrane protein [Function unknown]; Region: COG2259 698962002266 Predicted integral membrane protein [Function unknown]; Region: COG5660 698962002267 Putative zinc-finger; Region: zf-HC2; pfam13490 698962002268 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 698962002269 BCCT family transporter; Region: BCCT; pfam02028 698962002270 Uncharacterized membrane protein [Function unknown]; Region: COG3949 698962002271 Predicted methyltransferases [General function prediction only]; Region: COG0313 698962002272 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 698962002273 putative SAM binding site [chemical binding]; other site 698962002274 putative homodimer interface [polypeptide binding]; other site 698962002275 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 698962002276 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 698962002277 active site 698962002278 HIGH motif; other site 698962002279 KMSKS motif; other site 698962002280 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 698962002281 tRNA binding surface [nucleotide binding]; other site 698962002282 anticodon binding site; other site 698962002283 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 698962002284 active site 698962002285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 698962002286 Domain of unknown function (DUF348); Region: DUF348; pfam03990 698962002287 Domain of unknown function (DUF348); Region: DUF348; pfam03990 698962002288 Domain of unknown function (DUF348); Region: DUF348; pfam03990 698962002289 G5 domain; Region: G5; pfam07501 698962002290 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 698962002291 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 698962002292 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 698962002293 S-adenosylmethionine binding site [chemical binding]; other site 698962002294 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 698962002295 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 698962002296 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 698962002297 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962002298 ABC transporter; Region: ABC_tran_2; pfam12848 698962002299 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962002300 Uncharacterized conserved protein [Function unknown]; Region: COG1359 698962002301 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 698962002302 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962002303 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 698962002304 DNA binding residues [nucleotide binding] 698962002305 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 698962002306 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 698962002307 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 698962002308 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 698962002309 active site 698962002310 motif I; other site 698962002311 motif II; other site 698962002312 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 698962002313 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 698962002314 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 698962002315 substrate binding site [chemical binding]; other site 698962002316 oxyanion hole (OAH) forming residues; other site 698962002317 trimer interface [polypeptide binding]; other site 698962002318 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 698962002319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962002320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962002321 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 698962002322 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 698962002323 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 698962002324 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 698962002325 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 698962002326 G1 box; other site 698962002327 putative GEF interaction site [polypeptide binding]; other site 698962002328 GTP/Mg2+ binding site [chemical binding]; other site 698962002329 Switch I region; other site 698962002330 G2 box; other site 698962002331 G3 box; other site 698962002332 Switch II region; other site 698962002333 G4 box; other site 698962002334 G5 box; other site 698962002335 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 698962002336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962002337 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 698962002338 NAD(P) binding site [chemical binding]; other site 698962002339 active site 698962002340 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 698962002341 putative active site [active] 698962002342 catalytic residue [active] 698962002343 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962002344 active site 698962002345 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 698962002346 putative active site [active] 698962002347 catalytic residue [active] 698962002348 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 698962002349 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 698962002350 5S rRNA interface [nucleotide binding]; other site 698962002351 CTC domain interface [polypeptide binding]; other site 698962002352 L16 interface [polypeptide binding]; other site 698962002353 pullulanase, type I; Region: pulA_typeI; TIGR02104 698962002354 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 698962002355 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 698962002356 Ca binding site [ion binding]; other site 698962002357 active site 698962002358 catalytic site [active] 698962002359 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 698962002360 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 698962002361 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962002362 active site 698962002363 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 698962002364 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 698962002365 Substrate binding site; other site 698962002366 Mg++ binding site; other site 698962002367 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 698962002368 active site 698962002369 substrate binding site [chemical binding]; other site 698962002370 CoA binding site [chemical binding]; other site 698962002371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 698962002372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 698962002373 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 698962002374 putative dimerization interface [polypeptide binding]; other site 698962002375 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 698962002376 gating phenylalanine in ion channel; other site 698962002377 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 698962002378 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 698962002379 putative ligand binding site [chemical binding]; other site 698962002380 putative NAD binding site [chemical binding]; other site 698962002381 catalytic site [active] 698962002382 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962002383 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962002384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002385 Q-loop/lid; other site 698962002386 ABC transporter signature motif; other site 698962002387 Walker B; other site 698962002388 D-loop; other site 698962002389 H-loop/switch region; other site 698962002390 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962002391 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962002392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002393 Walker A/P-loop; other site 698962002394 ATP binding site [chemical binding]; other site 698962002395 Q-loop/lid; other site 698962002396 ABC transporter signature motif; other site 698962002397 Walker B; other site 698962002398 D-loop; other site 698962002399 H-loop/switch region; other site 698962002400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962002401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962002402 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 698962002403 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 698962002404 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 698962002405 ATP binding site [chemical binding]; other site 698962002406 putative Mg++ binding site [ion binding]; other site 698962002407 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 698962002408 nucleotide binding region [chemical binding]; other site 698962002409 ATP-binding site [chemical binding]; other site 698962002410 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 698962002411 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 698962002412 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 698962002413 homodimer interface [polypeptide binding]; other site 698962002414 metal binding site [ion binding]; metal-binding site 698962002415 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 698962002416 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 698962002417 enolase; Provisional; Region: eno; PRK00077 698962002418 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 698962002419 dimer interface [polypeptide binding]; other site 698962002420 metal binding site [ion binding]; metal-binding site 698962002421 substrate binding pocket [chemical binding]; other site 698962002422 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 698962002423 Septum formation initiator; Region: DivIC; pfam04977 698962002424 Uncharacterized conserved protein [Function unknown]; Region: COG1507 698962002425 exopolyphosphatase; Region: exo_poly_only; TIGR03706 698962002426 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 698962002427 Helix-turn-helix domain; Region: HTH_18; pfam12833 698962002428 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 698962002429 Bax inhibitor 1 like; Region: BaxI_1; cl17691 698962002430 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 698962002431 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 698962002432 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 698962002433 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 698962002434 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 698962002435 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 698962002436 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 698962002437 catalytic residue [active] 698962002438 putative FPP diphosphate binding site; other site 698962002439 putative FPP binding hydrophobic cleft; other site 698962002440 dimer interface [polypeptide binding]; other site 698962002441 putative IPP diphosphate binding site; other site 698962002442 Flavodoxin domain; Region: Flavodoxin_5; cl17428 698962002443 pantothenate kinase; Provisional; Region: PRK05439 698962002444 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 698962002445 ATP-binding site [chemical binding]; other site 698962002446 CoA-binding site [chemical binding]; other site 698962002447 Mg2+-binding site [ion binding]; other site 698962002448 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 698962002449 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 698962002450 dimer interface [polypeptide binding]; other site 698962002451 active site 698962002452 glycine-pyridoxal phosphate binding site [chemical binding]; other site 698962002453 folate binding site [chemical binding]; other site 698962002454 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 698962002455 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 698962002456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962002457 Coenzyme A binding pocket [chemical binding]; other site 698962002458 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 698962002459 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 698962002460 putative substrate translocation pore; other site 698962002461 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 698962002462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962002463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962002464 fumarate hydratase; Reviewed; Region: fumC; PRK00485 698962002465 Class II fumarases; Region: Fumarase_classII; cd01362 698962002466 active site 698962002467 tetramer interface [polypeptide binding]; other site 698962002468 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 698962002469 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 698962002470 putative active site [active] 698962002471 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 698962002472 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 698962002473 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 698962002474 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 698962002475 generic binding surface II; other site 698962002476 generic binding surface I; other site 698962002477 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 698962002478 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 698962002479 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 698962002480 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 698962002481 Domain of unknown function DUF20; Region: UPF0118; pfam01594 698962002482 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 698962002483 Na2 binding site [ion binding]; other site 698962002484 putative substrate binding site 1 [chemical binding]; other site 698962002485 Na binding site 1 [ion binding]; other site 698962002486 putative substrate binding site 2 [chemical binding]; other site 698962002487 GTP-binding protein YchF; Reviewed; Region: PRK09601 698962002488 YchF GTPase; Region: YchF; cd01900 698962002489 G1 box; other site 698962002490 GTP/Mg2+ binding site [chemical binding]; other site 698962002491 Switch I region; other site 698962002492 G2 box; other site 698962002493 Switch II region; other site 698962002494 G3 box; other site 698962002495 G4 box; other site 698962002496 G5 box; other site 698962002497 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 698962002498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 698962002499 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 698962002500 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 698962002501 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 698962002502 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 698962002503 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 698962002504 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 698962002505 Cl- selectivity filter; other site 698962002506 Cl- binding residues [ion binding]; other site 698962002507 pore gating glutamate residue; other site 698962002508 dimer interface [polypeptide binding]; other site 698962002509 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 698962002510 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 698962002511 Walker A/P-loop; other site 698962002512 ATP binding site [chemical binding]; other site 698962002513 Q-loop/lid; other site 698962002514 ABC transporter signature motif; other site 698962002515 Walker B; other site 698962002516 D-loop; other site 698962002517 H-loop/switch region; other site 698962002518 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 698962002519 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 698962002520 Walker A/P-loop; other site 698962002521 ATP binding site [chemical binding]; other site 698962002522 Q-loop/lid; other site 698962002523 ABC transporter signature motif; other site 698962002524 Walker B; other site 698962002525 D-loop; other site 698962002526 H-loop/switch region; other site 698962002527 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 698962002528 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 698962002529 active site 698962002530 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 698962002531 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 698962002532 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962002533 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 698962002534 dimer interface [polypeptide binding]; other site 698962002535 conserved gate region; other site 698962002536 ABC-ATPase subunit interface; other site 698962002537 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 698962002538 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 698962002539 dimer interface [polypeptide binding]; other site 698962002540 conserved gate region; other site 698962002541 putative PBP binding loops; other site 698962002542 ABC-ATPase subunit interface; other site 698962002543 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 698962002544 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962002545 Walker A/P-loop; other site 698962002546 ATP binding site [chemical binding]; other site 698962002547 Q-loop/lid; other site 698962002548 ABC transporter signature motif; other site 698962002549 Walker B; other site 698962002550 D-loop; other site 698962002551 H-loop/switch region; other site 698962002552 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 698962002553 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962002554 Walker A/P-loop; other site 698962002555 ATP binding site [chemical binding]; other site 698962002556 Q-loop/lid; other site 698962002557 ABC transporter signature motif; other site 698962002558 Walker B; other site 698962002559 D-loop; other site 698962002560 H-loop/switch region; other site 698962002561 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962002562 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 698962002563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002564 Walker A/P-loop; other site 698962002565 ATP binding site [chemical binding]; other site 698962002566 ABC transporter signature motif; other site 698962002567 Walker B; other site 698962002568 D-loop; other site 698962002569 H-loop/switch region; other site 698962002570 potential frameshift: common BLAST hit: gi|336118205|ref|YP_004572974.1| transposase orfB for insertion sequence element 698962002571 potential frameshift: common BLAST hit: gi|269958070|ref|YP_003327859.1| Integrase catalytic region 698962002572 Integrase core domain; Region: rve; pfam00665 698962002573 Integrase core domain; Region: rve_3; pfam13683 698962002574 Trypsin; Region: Trypsin; pfam00089 698962002575 active site 698962002576 substrate binding sites [chemical binding]; other site 698962002577 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 698962002578 ArsC family; Region: ArsC; pfam03960 698962002579 catalytic residues [active] 698962002580 Protein of unknown function (DUF402); Region: DUF402; cl00979 698962002581 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 698962002582 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 698962002583 G1 box; other site 698962002584 GTP/Mg2+ binding site [chemical binding]; other site 698962002585 G2 box; other site 698962002586 Switch I region; other site 698962002587 G3 box; other site 698962002588 Switch II region; other site 698962002589 G4 box; other site 698962002590 G5 box; other site 698962002591 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 698962002592 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 698962002593 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 698962002594 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 698962002595 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 698962002596 Ferredoxin [Energy production and conversion]; Region: COG1146 698962002597 4Fe-4S binding domain; Region: Fer4; pfam00037 698962002598 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 698962002599 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 698962002600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962002601 homodimer interface [polypeptide binding]; other site 698962002602 catalytic residue [active] 698962002603 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 698962002604 active site 698962002605 Predicted membrane protein [Function unknown]; Region: COG2246 698962002606 GtrA-like protein; Region: GtrA; pfam04138 698962002607 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962002608 active site 698962002609 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 698962002610 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 698962002611 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 698962002612 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 698962002613 putative trimer interface [polypeptide binding]; other site 698962002614 putative CoA binding site [chemical binding]; other site 698962002615 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 698962002616 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 698962002617 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 698962002618 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962002619 putative trimer interface [polypeptide binding]; other site 698962002620 putative CoA binding site [chemical binding]; other site 698962002621 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 698962002622 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 698962002623 metal binding site [ion binding]; metal-binding site 698962002624 putative dimer interface [polypeptide binding]; other site 698962002625 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 698962002626 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 698962002627 dihydropteroate synthase; Region: DHPS; TIGR01496 698962002628 substrate binding pocket [chemical binding]; other site 698962002629 dimer interface [polypeptide binding]; other site 698962002630 inhibitor binding site; inhibition site 698962002631 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 698962002632 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 698962002633 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 698962002634 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 698962002635 S-adenosylmethionine binding site [chemical binding]; other site 698962002636 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 698962002637 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 698962002638 active site 698962002639 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 698962002640 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 698962002641 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 698962002642 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 698962002643 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 698962002644 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 698962002645 ligand binding site; other site 698962002646 oligomer interface; other site 698962002647 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 698962002648 dimer interface [polypeptide binding]; other site 698962002649 N-terminal domain interface [polypeptide binding]; other site 698962002650 sulfate 1 binding site; other site 698962002651 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 698962002652 Putative zinc-finger; Region: zf-HC2; pfam13490 698962002653 sec-independent translocase; Provisional; Region: tatB; PRK00182 698962002654 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 698962002655 Domain of unknown function DUF59; Region: DUF59; pfam01883 698962002656 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 698962002657 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 698962002658 Predicted membrane protein [Function unknown]; Region: COG4420 698962002659 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 698962002660 MgtE intracellular N domain; Region: MgtE_N; smart00924 698962002661 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 698962002662 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 698962002663 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 698962002664 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 698962002665 TPP-binding site [chemical binding]; other site 698962002666 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 698962002667 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962002668 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962002669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002670 Walker A/P-loop; other site 698962002671 ATP binding site [chemical binding]; other site 698962002672 Q-loop/lid; other site 698962002673 ABC transporter signature motif; other site 698962002674 Walker B; other site 698962002675 D-loop; other site 698962002676 H-loop/switch region; other site 698962002677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962002678 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962002679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002680 Walker A/P-loop; other site 698962002681 ATP binding site [chemical binding]; other site 698962002682 Q-loop/lid; other site 698962002683 ABC transporter signature motif; other site 698962002684 Walker B; other site 698962002685 D-loop; other site 698962002686 H-loop/switch region; other site 698962002687 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 698962002688 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 698962002689 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 698962002690 shikimate binding site; other site 698962002691 NAD(P) binding site [chemical binding]; other site 698962002692 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 698962002693 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 698962002694 substrate binding pocket [chemical binding]; other site 698962002695 catalytic triad [active] 698962002696 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 698962002697 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 698962002698 active site 698962002699 catalytic residues [active] 698962002700 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 698962002701 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u2; cd11478 698962002702 Na binding site [ion binding]; other site 698962002703 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 698962002704 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 698962002705 nucleotide binding site/active site [active] 698962002706 HIT family signature motif; other site 698962002707 catalytic residue [active] 698962002708 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 698962002709 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 698962002710 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 698962002711 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 698962002712 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 698962002713 PLD-like domain; Region: PLDc_2; pfam13091 698962002714 putative homodimer interface [polypeptide binding]; other site 698962002715 putative active site [active] 698962002716 catalytic site [active] 698962002717 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 698962002718 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 698962002719 putative Mg++ binding site [ion binding]; other site 698962002720 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 698962002721 nucleotide binding region [chemical binding]; other site 698962002722 ATP-binding site [chemical binding]; other site 698962002723 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 698962002724 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 698962002725 active site 698962002726 8-oxo-dGMP binding site [chemical binding]; other site 698962002727 nudix motif; other site 698962002728 metal binding site [ion binding]; metal-binding site 698962002729 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 698962002730 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 698962002731 ATP binding site [chemical binding]; other site 698962002732 Mg++ binding site [ion binding]; other site 698962002733 motif III; other site 698962002734 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 698962002735 nucleotide binding region [chemical binding]; other site 698962002736 ATP-binding site [chemical binding]; other site 698962002737 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 698962002738 putative RNA binding site [nucleotide binding]; other site 698962002739 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 698962002740 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 698962002741 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 698962002742 Na binding site [ion binding]; other site 698962002743 SNF2 Helicase protein; Region: DUF3670; pfam12419 698962002744 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 698962002745 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 698962002746 ATP binding site [chemical binding]; other site 698962002747 putative Mg++ binding site [ion binding]; other site 698962002748 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 698962002749 nucleotide binding region [chemical binding]; other site 698962002750 ATP-binding site [chemical binding]; other site 698962002751 Uncharacterized conserved protein [Function unknown]; Region: COG4279 698962002752 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 698962002753 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 698962002754 active site 698962002755 metal binding site [ion binding]; metal-binding site 698962002756 DNA binding site [nucleotide binding] 698962002757 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 698962002758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002759 Walker A/P-loop; other site 698962002760 ATP binding site [chemical binding]; other site 698962002761 Q-loop/lid; other site 698962002762 Uncharacterized conserved protein [Function unknown]; Region: COG2353 698962002763 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 698962002764 MarR family; Region: MarR_2; pfam12802 698962002765 PspC domain; Region: PspC; cl00864 698962002766 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 698962002767 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 698962002768 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 698962002769 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 698962002770 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 698962002771 L-lactate permease; Region: Lactate_perm; cl00701 698962002772 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 698962002773 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 698962002774 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 698962002775 active site 698962002776 HIGH motif; other site 698962002777 KMSK motif region; other site 698962002778 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 698962002779 tRNA binding surface [nucleotide binding]; other site 698962002780 anticodon binding site; other site 698962002781 diaminopimelate decarboxylase; Region: lysA; TIGR01048 698962002782 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 698962002783 active site 698962002784 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 698962002785 substrate binding site [chemical binding]; other site 698962002786 catalytic residues [active] 698962002787 dimer interface [polypeptide binding]; other site 698962002788 homoserine dehydrogenase; Provisional; Region: PRK06349 698962002789 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 698962002790 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 698962002791 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 698962002792 homoserine kinase; Provisional; Region: PRK01212 698962002793 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 698962002794 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962002795 acyl-activating enzyme (AAE) consensus motif; other site 698962002796 AMP binding site [chemical binding]; other site 698962002797 active site 698962002798 CoA binding site [chemical binding]; other site 698962002799 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 698962002800 transcription termination factor Rho; Provisional; Region: PRK12608 698962002801 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 698962002802 RNA binding site [nucleotide binding]; other site 698962002803 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 698962002804 multimer interface [polypeptide binding]; other site 698962002805 Walker A motif; other site 698962002806 ATP binding site [chemical binding]; other site 698962002807 Walker B motif; other site 698962002808 peptide chain release factor 1; Validated; Region: prfA; PRK00591 698962002809 This domain is found in peptide chain release factors; Region: PCRF; smart00937 698962002810 RF-1 domain; Region: RF-1; pfam00472 698962002811 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 698962002812 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 698962002813 S-adenosylmethionine binding site [chemical binding]; other site 698962002814 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 698962002815 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 698962002816 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 698962002817 Mg++ binding site [ion binding]; other site 698962002818 putative catalytic motif [active] 698962002819 substrate binding site [chemical binding]; other site 698962002820 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 698962002821 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 698962002822 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 698962002823 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 698962002824 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 698962002825 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 698962002826 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 698962002827 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 698962002828 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 698962002829 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 698962002830 beta subunit interaction interface [polypeptide binding]; other site 698962002831 Walker A motif; other site 698962002832 ATP binding site [chemical binding]; other site 698962002833 Walker B motif; other site 698962002834 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 698962002835 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 698962002836 core domain interface [polypeptide binding]; other site 698962002837 delta subunit interface [polypeptide binding]; other site 698962002838 epsilon subunit interface [polypeptide binding]; other site 698962002839 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 698962002840 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 698962002841 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 698962002842 alpha subunit interaction interface [polypeptide binding]; other site 698962002843 Walker A motif; other site 698962002844 ATP binding site [chemical binding]; other site 698962002845 Walker B motif; other site 698962002846 inhibitor binding site; inhibition site 698962002847 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 698962002848 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 698962002849 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 698962002850 gamma subunit interface [polypeptide binding]; other site 698962002851 epsilon subunit interface [polypeptide binding]; other site 698962002852 LBP interface [polypeptide binding]; other site 698962002853 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 698962002854 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 698962002855 hypothetical protein; Provisional; Region: PRK03298 698962002856 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 698962002857 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 698962002858 dimer interface [polypeptide binding]; other site 698962002859 substrate binding site [chemical binding]; other site 698962002860 metal binding site [ion binding]; metal-binding site 698962002861 Domain of unknown function DUF77; Region: DUF77; pfam01910 698962002862 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962002863 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 698962002864 Walker A/P-loop; other site 698962002865 ATP binding site [chemical binding]; other site 698962002866 Q-loop/lid; other site 698962002867 ABC transporter signature motif; other site 698962002868 Walker B; other site 698962002869 D-loop; other site 698962002870 H-loop/switch region; other site 698962002871 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 698962002872 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 698962002873 ABC-ATPase subunit interface; other site 698962002874 dimer interface [polypeptide binding]; other site 698962002875 putative PBP binding regions; other site 698962002876 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 698962002877 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 698962002878 ABC-ATPase subunit interface; other site 698962002879 dimer interface [polypeptide binding]; other site 698962002880 putative PBP binding regions; other site 698962002881 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 698962002882 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 698962002883 siderophore binding site; other site 698962002884 TIGR02611 family protein; Region: TIGR02611 698962002885 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 698962002886 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 698962002887 PsiA protein; Region: PsiA; cl11646 698962002888 glycogen branching enzyme; Provisional; Region: PRK05402 698962002889 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 698962002890 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 698962002891 active site 698962002892 catalytic site [active] 698962002893 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 698962002894 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 698962002895 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 698962002896 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 698962002897 active site 698962002898 homodimer interface [polypeptide binding]; other site 698962002899 catalytic site [active] 698962002900 acceptor binding site [chemical binding]; other site 698962002901 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962002902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002903 Walker A/P-loop; other site 698962002904 ATP binding site [chemical binding]; other site 698962002905 Q-loop/lid; other site 698962002906 ABC transporter signature motif; other site 698962002907 Walker B; other site 698962002908 D-loop; other site 698962002909 H-loop/switch region; other site 698962002910 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 698962002911 Ligand binding site [chemical binding]; other site 698962002912 Electron transfer flavoprotein domain; Region: ETF; pfam01012 698962002913 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 698962002914 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 698962002915 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 698962002916 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 698962002917 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 698962002918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 698962002919 catalytic residue [active] 698962002920 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 698962002921 S-adenosylmethionine binding site [chemical binding]; other site 698962002922 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 698962002923 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 698962002924 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 698962002925 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 698962002926 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 698962002927 active site 698962002928 catalytic site [active] 698962002929 substrate binding site [chemical binding]; other site 698962002930 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 698962002931 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 698962002932 nucleotide binding pocket [chemical binding]; other site 698962002933 K-X-D-G motif; other site 698962002934 catalytic site [active] 698962002935 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 698962002936 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 698962002937 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 698962002938 Dimer interface [polypeptide binding]; other site 698962002939 BRCT sequence motif; other site 698962002940 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 698962002941 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 698962002942 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 698962002943 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 698962002944 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 698962002945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962002946 Coenzyme A binding pocket [chemical binding]; other site 698962002947 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 698962002948 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962002949 putative substrate translocation pore; other site 698962002950 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 698962002951 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 698962002952 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 698962002953 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 698962002954 ABC-ATPase subunit interface; other site 698962002955 dimer interface [polypeptide binding]; other site 698962002956 putative PBP binding regions; other site 698962002957 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962002958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962002959 Walker A/P-loop; other site 698962002960 ATP binding site [chemical binding]; other site 698962002961 Q-loop/lid; other site 698962002962 ABC transporter signature motif; other site 698962002963 Walker B; other site 698962002964 D-loop; other site 698962002965 H-loop/switch region; other site 698962002966 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 698962002967 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 698962002968 putative ligand binding residues [chemical binding]; other site 698962002969 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 698962002970 phosphofructokinase; Region: PFK_mixed; TIGR02483 698962002971 active site 698962002972 ADP/pyrophosphate binding site [chemical binding]; other site 698962002973 dimerization interface [polypeptide binding]; other site 698962002974 allosteric effector site; other site 698962002975 fructose-1,6-bisphosphate binding site; other site 698962002976 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 698962002977 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 698962002978 GatB domain; Region: GatB_Yqey; smart00845 698962002979 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 698962002980 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 698962002981 active site 698962002982 catalytic tetrad [active] 698962002983 Lysine efflux permease [General function prediction only]; Region: COG1279 698962002984 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 698962002985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 698962002986 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 698962002987 dimerization interface [polypeptide binding]; other site 698962002988 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 698962002989 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 698962002990 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 698962002991 putative dimer interface [polypeptide binding]; other site 698962002992 N-terminal domain interface [polypeptide binding]; other site 698962002993 putative substrate binding pocket (H-site) [chemical binding]; other site 698962002994 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 698962002995 Predicted membrane protein [Function unknown]; Region: COG2259 698962002996 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 698962002997 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 698962002998 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 698962002999 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 698962003000 PYR/PP interface [polypeptide binding]; other site 698962003001 dimer interface [polypeptide binding]; other site 698962003002 TPP binding site [chemical binding]; other site 698962003003 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 698962003004 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 698962003005 TPP-binding site [chemical binding]; other site 698962003006 dimer interface [polypeptide binding]; other site 698962003007 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 698962003008 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 698962003009 putative valine binding site [chemical binding]; other site 698962003010 dimer interface [polypeptide binding]; other site 698962003011 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 698962003012 ketol-acid reductoisomerase; Provisional; Region: PRK05479 698962003013 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 698962003014 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 698962003015 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 698962003016 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 698962003017 Uncharacterized conserved protein [Function unknown]; Region: COG1479 698962003018 Protein of unknown function DUF262; Region: DUF262; pfam03235 698962003019 Uncharacterized conserved protein [Function unknown]; Region: COG3472 698962003020 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 698962003021 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 698962003022 ligand binding site [chemical binding]; other site 698962003023 NAD binding site [chemical binding]; other site 698962003024 dimerization interface [polypeptide binding]; other site 698962003025 catalytic site [active] 698962003026 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 698962003027 putative L-serine binding site [chemical binding]; other site 698962003028 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 698962003029 tartrate dehydrogenase; Region: TTC; TIGR02089 698962003030 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 698962003031 ligand binding site [chemical binding]; other site 698962003032 flexible hinge region; other site 698962003033 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 698962003034 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 698962003035 metal binding triad; other site 698962003036 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 698962003037 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 698962003038 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 698962003039 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 698962003040 catalytic site [active] 698962003041 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 698962003042 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 698962003043 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 698962003044 Methyltransferase domain; Region: Methyltransf_23; pfam13489 698962003045 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 698962003046 S-adenosylmethionine binding site [chemical binding]; other site 698962003047 isochorismate synthase DhbC; Validated; Region: PRK06923 698962003048 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 698962003049 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 698962003050 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 698962003051 active site 698962003052 HIGH motif; other site 698962003053 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 698962003054 active site 698962003055 KMSKS motif; other site 698962003056 Predicted esterase [General function prediction only]; Region: COG0400 698962003057 potential frameshift: common BLAST hit: gi|38234527|ref|NP_940294.1| transposase 698962003058 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962003059 HTH-like domain; Region: HTH_21; pfam13276 698962003060 Integrase core domain; Region: rve; pfam00665 698962003061 Integrase core domain; Region: rve_2; pfam13333 698962003062 MMPL family; Region: MMPL; pfam03176 698962003063 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 698962003064 Cutinase; Region: Cutinase; pfam01083 698962003065 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 698962003066 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 698962003067 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 698962003068 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 698962003069 PhnA protein; Region: PhnA; pfam03831 698962003070 biotin synthase; Region: bioB; TIGR00433 698962003071 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 698962003072 FeS/SAM binding site; other site 698962003073 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 698962003074 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 698962003075 HD domain; Region: HD_4; pfam13328 698962003076 Transcriptional regulator [Transcription]; Region: IclR; COG1414 698962003077 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 698962003078 putative DNA binding site [nucleotide binding]; other site 698962003079 putative Zn2+ binding site [ion binding]; other site 698962003080 Bacterial transcriptional regulator; Region: IclR; pfam01614 698962003081 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 698962003082 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 698962003083 substrate binding site [chemical binding]; other site 698962003084 ligand binding site [chemical binding]; other site 698962003085 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 698962003086 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 698962003087 substrate binding site [chemical binding]; other site 698962003088 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 698962003089 active site 698962003090 Ap6A binding site [chemical binding]; other site 698962003091 nudix motif; other site 698962003092 metal binding site [ion binding]; metal-binding site 698962003093 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 698962003094 catalytic core [active] 698962003095 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 698962003096 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 698962003097 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 698962003098 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 698962003099 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 698962003100 ATP-grasp domain; Region: ATP-grasp_4; cl17255 698962003101 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 698962003102 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 698962003103 thiamine monophosphate kinase; Provisional; Region: PRK05731 698962003104 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 698962003105 ATP binding site [chemical binding]; other site 698962003106 dimerization interface [polypeptide binding]; other site 698962003107 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 698962003108 ligand binding site [chemical binding]; other site 698962003109 active site 698962003110 UGI interface [polypeptide binding]; other site 698962003111 catalytic site [active] 698962003112 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 698962003113 DAK2 domain; Region: Dak2; pfam02734 698962003114 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 698962003115 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 698962003116 generic binding surface II; other site 698962003117 ssDNA binding site; other site 698962003118 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 698962003119 ATP binding site [chemical binding]; other site 698962003120 putative Mg++ binding site [ion binding]; other site 698962003121 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 698962003122 nucleotide binding region [chemical binding]; other site 698962003123 ATP-binding site [chemical binding]; other site 698962003124 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 698962003125 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 698962003126 carboxyltransferase (CT) interaction site; other site 698962003127 biotinylation site [posttranslational modification]; other site 698962003128 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 698962003129 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 698962003130 S-adenosylmethionine binding site [chemical binding]; other site 698962003131 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 698962003132 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 698962003133 active site 698962003134 (T/H)XGH motif; other site 698962003135 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 698962003136 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 698962003137 Walker A/P-loop; other site 698962003138 ATP binding site [chemical binding]; other site 698962003139 Q-loop/lid; other site 698962003140 ABC transporter signature motif; other site 698962003141 Walker B; other site 698962003142 D-loop; other site 698962003143 H-loop/switch region; other site 698962003144 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962003145 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 698962003146 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 698962003147 dimer interface [polypeptide binding]; other site 698962003148 conserved gate region; other site 698962003149 putative PBP binding loops; other site 698962003150 ABC-ATPase subunit interface; other site 698962003151 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 698962003152 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 698962003153 substrate binding pocket [chemical binding]; other site 698962003154 membrane-bound complex binding site; other site 698962003155 hinge residues; other site 698962003156 Domain of unknown function (DUF368); Region: DUF368; pfam04018 698962003157 DNA polymerase I; Provisional; Region: PRK05755 698962003158 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 698962003159 active site 698962003160 metal binding site 1 [ion binding]; metal-binding site 698962003161 putative 5' ssDNA interaction site; other site 698962003162 metal binding site 3; metal-binding site 698962003163 metal binding site 2 [ion binding]; metal-binding site 698962003164 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 698962003165 putative DNA binding site [nucleotide binding]; other site 698962003166 putative metal binding site [ion binding]; other site 698962003167 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 698962003168 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 698962003169 active site 698962003170 DNA binding site [nucleotide binding] 698962003171 catalytic site [active] 698962003172 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 698962003173 S-adenosylmethionine binding site [chemical binding]; other site 698962003174 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 698962003175 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 698962003176 RNA binding site [nucleotide binding]; other site 698962003177 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 698962003178 RNA binding site [nucleotide binding]; other site 698962003179 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 698962003180 RNA binding site [nucleotide binding]; other site 698962003181 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 698962003182 RNA binding site [nucleotide binding]; other site 698962003183 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 698962003184 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 698962003185 transcriptional antiterminator BglG; Provisional; Region: PRK09772 698962003186 CAT RNA binding domain; Region: CAT_RBD; smart01061 698962003187 PRD domain; Region: PRD; pfam00874 698962003188 PRD domain; Region: PRD; pfam00874 698962003189 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 698962003190 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 698962003191 active site turn [active] 698962003192 phosphorylation site [posttranslational modification] 698962003193 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 698962003194 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 698962003195 HPr interaction site; other site 698962003196 glycerol kinase (GK) interaction site [polypeptide binding]; other site 698962003197 active site 698962003198 phosphorylation site [posttranslational modification] 698962003199 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 698962003200 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 698962003201 CoA-binding site [chemical binding]; other site 698962003202 ATP-binding [chemical binding]; other site 698962003203 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 698962003204 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 698962003205 FeS/SAM binding site; other site 698962003206 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 698962003207 excinuclease ABC subunit B; Provisional; Region: PRK05298 698962003208 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 698962003209 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 698962003210 nucleotide binding region [chemical binding]; other site 698962003211 ATP-binding site [chemical binding]; other site 698962003212 Ultra-violet resistance protein B; Region: UvrB; pfam12344 698962003213 UvrB/uvrC motif; Region: UVR; pfam02151 698962003214 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 698962003215 Ligand Binding Site [chemical binding]; other site 698962003216 potential frameshift: common BLAST hit: gi|38233746|ref|NP_939513.1| helicase 698962003217 PhoH-like protein; Region: PhoH; cl17668 698962003218 Family description; Region: UvrD_C_2; pfam13538 698962003219 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 698962003220 Part of AAA domain; Region: AAA_19; pfam13245 698962003221 Predicted membrane protein [Function unknown]; Region: COG2259 698962003222 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 698962003223 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 698962003224 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 698962003225 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 698962003226 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 698962003227 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 698962003228 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 698962003229 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 698962003230 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 698962003231 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 698962003232 23S rRNA binding site [nucleotide binding]; other site 698962003233 L21 binding site [polypeptide binding]; other site 698962003234 L13 binding site [polypeptide binding]; other site 698962003235 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 698962003236 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 698962003237 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 698962003238 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 698962003239 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 698962003240 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 698962003241 dimer interface [polypeptide binding]; other site 698962003242 motif 1; other site 698962003243 active site 698962003244 motif 2; other site 698962003245 motif 3; other site 698962003246 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 698962003247 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 698962003248 putative tRNA-binding site [nucleotide binding]; other site 698962003249 B3/4 domain; Region: B3_4; pfam03483 698962003250 tRNA synthetase B5 domain; Region: B5; smart00874 698962003251 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 698962003252 dimer interface [polypeptide binding]; other site 698962003253 motif 1; other site 698962003254 motif 3; other site 698962003255 motif 2; other site 698962003256 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 698962003257 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 698962003258 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 698962003259 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 698962003260 heterotetramer interface [polypeptide binding]; other site 698962003261 active site pocket [active] 698962003262 cleavage site 698962003263 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 698962003264 feedback inhibition sensing region; other site 698962003265 homohexameric interface [polypeptide binding]; other site 698962003266 nucleotide binding site [chemical binding]; other site 698962003267 N-acetyl-L-glutamate binding site [chemical binding]; other site 698962003268 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 698962003269 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 698962003270 inhibitor-cofactor binding pocket; inhibition site 698962003271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962003272 catalytic residue [active] 698962003273 ornithine carbamoyltransferase; Provisional; Region: PRK00779 698962003274 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 698962003275 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 698962003276 arginine repressor; Provisional; Region: PRK03341 698962003277 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 698962003278 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 698962003279 argininosuccinate synthase; Provisional; Region: PRK13820 698962003280 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 698962003281 ANP binding site [chemical binding]; other site 698962003282 Substrate Binding Site II [chemical binding]; other site 698962003283 Substrate Binding Site I [chemical binding]; other site 698962003284 argininosuccinate lyase; Provisional; Region: PRK00855 698962003285 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 698962003286 active sites [active] 698962003287 tetramer interface [polypeptide binding]; other site 698962003288 Uncharacterized conserved protein [Function unknown]; Region: COG2835 698962003289 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 698962003290 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 698962003291 active site 698962003292 HIGH motif; other site 698962003293 dimer interface [polypeptide binding]; other site 698962003294 KMSKS motif; other site 698962003295 S4 RNA-binding domain; Region: S4; smart00363 698962003296 transcription termination factor Rho; Provisional; Region: PRK12678 698962003297 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 698962003298 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 698962003299 active site 698962003300 motif I; other site 698962003301 motif II; other site 698962003302 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 698962003303 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 698962003304 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 698962003305 RNA binding surface [nucleotide binding]; other site 698962003306 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 698962003307 S-adenosylmethionine binding site [chemical binding]; other site 698962003308 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 698962003309 ATP-NAD kinase; Region: NAD_kinase; pfam01513 698962003310 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 698962003311 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 698962003312 Walker A/P-loop; other site 698962003313 ATP binding site [chemical binding]; other site 698962003314 Q-loop/lid; other site 698962003315 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 698962003316 ABC transporter signature motif; other site 698962003317 Walker B; other site 698962003318 D-loop; other site 698962003319 H-loop/switch region; other site 698962003320 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 698962003321 Thiamine pyrophosphokinase; Region: TPK; cl08415 698962003322 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 698962003323 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 698962003324 dimer interface [polypeptide binding]; other site 698962003325 ADP-ribose binding site [chemical binding]; other site 698962003326 active site 698962003327 nudix motif; other site 698962003328 metal binding site [ion binding]; metal-binding site 698962003329 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 698962003330 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 698962003331 active site 698962003332 Int/Topo IB signature motif; other site 698962003333 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 698962003334 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 698962003335 P-loop; other site 698962003336 Magnesium ion binding site [ion binding]; other site 698962003337 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 698962003338 Magnesium ion binding site [ion binding]; other site 698962003339 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 698962003340 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 698962003341 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 698962003342 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 698962003343 POT family; Region: PTR2; cl17359 698962003344 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 698962003345 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 698962003346 inhibitor-cofactor binding pocket; inhibition site 698962003347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962003348 catalytic residue [active] 698962003349 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 698962003350 AAA domain; Region: AAA_26; pfam13500 698962003351 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 698962003352 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 698962003353 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 698962003354 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 698962003355 RNA binding surface [nucleotide binding]; other site 698962003356 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 698962003357 active site 698962003358 cytidylate kinase; Provisional; Region: cmk; PRK00023 698962003359 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 698962003360 CMP-binding site; other site 698962003361 The sites determining sugar specificity; other site 698962003362 GTP-binding protein Der; Reviewed; Region: PRK03003 698962003363 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 698962003364 G1 box; other site 698962003365 GTP/Mg2+ binding site [chemical binding]; other site 698962003366 Switch I region; other site 698962003367 G2 box; other site 698962003368 Switch II region; other site 698962003369 G3 box; other site 698962003370 G4 box; other site 698962003371 G5 box; other site 698962003372 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 698962003373 G1 box; other site 698962003374 GTP/Mg2+ binding site [chemical binding]; other site 698962003375 Switch I region; other site 698962003376 G2 box; other site 698962003377 G3 box; other site 698962003378 Switch II region; other site 698962003379 G4 box; other site 698962003380 G5 box; other site 698962003381 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 698962003382 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 698962003383 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 698962003384 S-adenosylmethionine binding site [chemical binding]; other site 698962003385 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 698962003386 Putative esterase; Region: Esterase; pfam00756 698962003387 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 698962003388 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 698962003389 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 698962003390 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 698962003391 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 698962003392 nucleotide binding region [chemical binding]; other site 698962003393 ATP-binding site [chemical binding]; other site 698962003394 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 698962003395 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 698962003396 phosphopeptide binding site; other site 698962003397 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 698962003398 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 698962003399 DNA binding residues [nucleotide binding] 698962003400 Bifunctional nuclease; Region: DNase-RNase; pfam02577 698962003401 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 698962003402 DNA binding residues [nucleotide binding] 698962003403 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 698962003404 putative dimer interface [polypeptide binding]; other site 698962003405 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 698962003406 metal ion-dependent adhesion site (MIDAS); other site 698962003407 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 698962003408 Domain of unknown function DUF21; Region: DUF21; pfam01595 698962003409 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 698962003410 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 698962003411 Domain of unknown function DUF21; Region: DUF21; pfam01595 698962003412 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 698962003413 Transporter associated domain; Region: CorC_HlyC; smart01091 698962003414 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 698962003415 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 698962003416 ATP binding site [chemical binding]; other site 698962003417 Mg++ binding site [ion binding]; other site 698962003418 motif III; other site 698962003419 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 698962003420 nucleotide binding region [chemical binding]; other site 698962003421 ATP-binding site [chemical binding]; other site 698962003422 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 698962003423 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 698962003424 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 698962003425 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 698962003426 CoenzymeA binding site [chemical binding]; other site 698962003427 subunit interaction site [polypeptide binding]; other site 698962003428 PHB binding site; other site 698962003429 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 698962003430 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 698962003431 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 698962003432 oligomer interface [polypeptide binding]; other site 698962003433 metal binding site [ion binding]; metal-binding site 698962003434 metal binding site [ion binding]; metal-binding site 698962003435 putative Cl binding site [ion binding]; other site 698962003436 basic sphincter; other site 698962003437 hydrophobic gate; other site 698962003438 periplasmic entrance; other site 698962003439 Methyltransferase domain; Region: Methyltransf_31; pfam13847 698962003440 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 698962003441 S-adenosylmethionine binding site [chemical binding]; other site 698962003442 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 698962003443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 698962003444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962003445 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 698962003446 potential frameshift: common BLAST hit: gi|337290692|ref|YP_004629713.1| putative RNA helicase 698962003447 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 698962003448 potential frameshift: common BLAST hit: gi|337290692|ref|YP_004629713.1| putative RNA helicase 698962003449 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 698962003450 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 698962003451 FAD binding domain; Region: FAD_binding_4; pfam01565 698962003452 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 698962003453 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 698962003454 Sodium Bile acid symporter family; Region: SBF; pfam01758 698962003455 YceI-like domain; Region: YceI; pfam04264 698962003456 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 698962003457 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 698962003458 Ligand binding site; other site 698962003459 Putative Catalytic site; other site 698962003460 DXD motif; other site 698962003461 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 698962003462 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 698962003463 putative active site [active] 698962003464 catalytic triad [active] 698962003465 putative dimer interface [polypeptide binding]; other site 698962003466 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 698962003467 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 698962003468 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 698962003469 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 698962003470 precorrin-3B synthase; Region: CobG; TIGR02435 698962003471 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 698962003472 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 698962003473 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 698962003474 Precorrin-8X methylmutase; Region: CbiC; pfam02570 698962003475 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 698962003476 active site 698962003477 SAM binding site [chemical binding]; other site 698962003478 homodimer interface [polypeptide binding]; other site 698962003479 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 698962003480 active site 698962003481 SAM binding site [chemical binding]; other site 698962003482 homodimer interface [polypeptide binding]; other site 698962003483 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 698962003484 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 698962003485 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 698962003486 active site 698962003487 SAM binding site [chemical binding]; other site 698962003488 homodimer interface [polypeptide binding]; other site 698962003489 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 698962003490 active site 698962003491 putative homodimer interface [polypeptide binding]; other site 698962003492 SAM binding site [chemical binding]; other site 698962003493 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 698962003494 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 698962003495 S-adenosylmethionine binding site [chemical binding]; other site 698962003496 hypothetical protein; Provisional; Region: PRK05599 698962003497 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 698962003498 NAD(P) binding site [chemical binding]; other site 698962003499 active site 698962003500 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 698962003501 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 698962003502 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 698962003503 active site 698962003504 DEAD-like helicases superfamily; Region: DEXDc; smart00487 698962003505 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 698962003506 ATP binding site [chemical binding]; other site 698962003507 putative Mg++ binding site [ion binding]; other site 698962003508 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 698962003509 nucleotide binding region [chemical binding]; other site 698962003510 ATP-binding site [chemical binding]; other site 698962003511 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 698962003512 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 698962003513 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 698962003514 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 698962003515 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 698962003516 Predicted transcriptional regulator [Transcription]; Region: COG2378 698962003517 WYL domain; Region: WYL; pfam13280 698962003518 WYL domain; Region: WYL; pfam13280 698962003519 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 698962003520 Pup-like protein; Region: Pup; pfam05639 698962003521 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 698962003522 proteasome ATPase; Region: pup_AAA; TIGR03689 698962003523 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 698962003524 Walker A motif; other site 698962003525 ATP binding site [chemical binding]; other site 698962003526 Walker B motif; other site 698962003527 arginine finger; other site 698962003528 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 698962003529 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 698962003530 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 698962003531 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 698962003532 active site 698962003533 metal binding site [ion binding]; metal-binding site 698962003534 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 698962003535 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 698962003536 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 698962003537 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 698962003538 Potassium binding sites [ion binding]; other site 698962003539 Cesium cation binding sites [ion binding]; other site 698962003540 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 698962003541 Aspartase; Region: Aspartase; cd01357 698962003542 active sites [active] 698962003543 tetramer interface [polypeptide binding]; other site 698962003544 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 698962003545 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 698962003546 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 698962003547 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 698962003548 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 698962003549 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 698962003550 homodimer interface [polypeptide binding]; other site 698962003551 putative metal binding site [ion binding]; other site 698962003552 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 698962003553 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 698962003554 motif II; other site 698962003555 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 698962003556 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 698962003557 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 698962003558 substrate binding pocket [chemical binding]; other site 698962003559 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 698962003560 B12 binding site [chemical binding]; other site 698962003561 cobalt ligand [ion binding]; other site 698962003562 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 698962003563 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 698962003564 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962003565 active site 698962003566 HIGH motif; other site 698962003567 nucleotide binding site [chemical binding]; other site 698962003568 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962003569 active site 698962003570 KMSKS motif; other site 698962003571 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 698962003572 tRNA binding surface [nucleotide binding]; other site 698962003573 anticodon binding site; other site 698962003574 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 698962003575 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 698962003576 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 698962003577 quinone interaction residues [chemical binding]; other site 698962003578 active site 698962003579 catalytic residues [active] 698962003580 FMN binding site [chemical binding]; other site 698962003581 substrate binding site [chemical binding]; other site 698962003582 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 698962003583 substrate binding site [chemical binding]; other site 698962003584 potential frameshift: common BLAST hit: gi|38234527|ref|NP_940294.1| transposase 698962003585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962003586 HTH-like domain; Region: HTH_21; pfam13276 698962003587 Integrase core domain; Region: rve; pfam00665 698962003588 Integrase core domain; Region: rve_2; pfam13333 698962003589 potential frameshift: common BLAST hit: gi|256379310|ref|YP_003102970.1| oxidoreductase 698962003590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962003591 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 698962003592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962003593 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; cl00125 698962003594 active site residue [active] 698962003595 membrane ATPase/protein kinase; Provisional; Region: PRK09435 698962003596 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 698962003597 Walker A; other site 698962003598 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 698962003599 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 698962003600 active site 698962003601 substrate binding site [chemical binding]; other site 698962003602 coenzyme B12 binding site [chemical binding]; other site 698962003603 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 698962003604 B12 binding site [chemical binding]; other site 698962003605 cobalt ligand [ion binding]; other site 698962003606 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 698962003607 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 698962003608 heterodimer interface [polypeptide binding]; other site 698962003609 substrate interaction site [chemical binding]; other site 698962003610 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 698962003611 Uncharacterized conserved protein [Function unknown]; Region: COG0398 698962003612 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 698962003613 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 698962003614 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 698962003615 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 698962003616 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 698962003617 ferrochelatase; Reviewed; Region: hemH; PRK00035 698962003618 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 698962003619 C-terminal domain interface [polypeptide binding]; other site 698962003620 active site 698962003621 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 698962003622 active site 698962003623 N-terminal domain interface [polypeptide binding]; other site 698962003624 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 698962003625 NlpC/P60 family; Region: NLPC_P60; pfam00877 698962003626 aconitate hydratase; Validated; Region: PRK09277 698962003627 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 698962003628 substrate binding site [chemical binding]; other site 698962003629 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 698962003630 ligand binding site [chemical binding]; other site 698962003631 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 698962003632 substrate binding site [chemical binding]; other site 698962003633 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962003634 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962003635 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 698962003636 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 698962003637 catalytic triad [active] 698962003638 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 698962003639 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 698962003640 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 698962003641 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962003642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962003643 Walker A/P-loop; other site 698962003644 ATP binding site [chemical binding]; other site 698962003645 Q-loop/lid; other site 698962003646 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962003647 ABC transporter signature motif; other site 698962003648 Walker B; other site 698962003649 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962003650 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 698962003651 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 698962003652 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 698962003653 trimerization site [polypeptide binding]; other site 698962003654 active site 698962003655 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 698962003656 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 698962003657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 698962003658 catalytic residue [active] 698962003659 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 698962003660 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 698962003661 Walker A/P-loop; other site 698962003662 ATP binding site [chemical binding]; other site 698962003663 Q-loop/lid; other site 698962003664 ABC transporter signature motif; other site 698962003665 Walker B; other site 698962003666 D-loop; other site 698962003667 H-loop/switch region; other site 698962003668 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 698962003669 FeS assembly protein SufD; Region: sufD; TIGR01981 698962003670 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 698962003671 FeS assembly protein SufB; Region: sufB; TIGR01980 698962003672 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 698962003673 Predicted transcriptional regulator [Transcription]; Region: COG2345 698962003674 putative DNA binding site [nucleotide binding]; other site 698962003675 putative Zn2+ binding site [ion binding]; other site 698962003676 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 698962003677 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962003678 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 698962003679 Walker A/P-loop; other site 698962003680 ATP binding site [chemical binding]; other site 698962003681 Q-loop/lid; other site 698962003682 ABC transporter signature motif; other site 698962003683 Walker B; other site 698962003684 D-loop; other site 698962003685 H-loop/switch region; other site 698962003686 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 698962003687 ABC-2 type transporter; Region: ABC2_membrane; cl17235 698962003688 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 698962003689 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 698962003690 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 698962003691 UbiA prenyltransferase family; Region: UbiA; pfam01040 698962003692 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 698962003693 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 698962003694 TPP-binding site [chemical binding]; other site 698962003695 dimer interface [polypeptide binding]; other site 698962003696 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 698962003697 PYR/PP interface [polypeptide binding]; other site 698962003698 dimer interface [polypeptide binding]; other site 698962003699 TPP binding site [chemical binding]; other site 698962003700 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 698962003701 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 698962003702 putative active site [active] 698962003703 transaldolase; Provisional; Region: PRK03903 698962003704 catalytic residue [active] 698962003705 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 698962003706 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 698962003707 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 698962003708 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 698962003709 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 698962003710 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 698962003711 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 698962003712 putative active site [active] 698962003713 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 698962003714 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 698962003715 triosephosphate isomerase; Provisional; Region: PRK14567 698962003716 substrate binding site [chemical binding]; other site 698962003717 dimer interface [polypeptide binding]; other site 698962003718 catalytic triad [active] 698962003719 Phosphoglycerate kinase; Region: PGK; pfam00162 698962003720 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 698962003721 substrate binding site [chemical binding]; other site 698962003722 hinge regions; other site 698962003723 ADP binding site [chemical binding]; other site 698962003724 catalytic site [active] 698962003725 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 698962003726 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 698962003727 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 698962003728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 698962003729 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 698962003730 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 698962003731 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 698962003732 phosphate binding site [ion binding]; other site 698962003733 putative substrate binding pocket [chemical binding]; other site 698962003734 dimer interface [polypeptide binding]; other site 698962003735 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 698962003736 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 698962003737 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 698962003738 GIY-YIG motif/motif A; other site 698962003739 active site 698962003740 catalytic site [active] 698962003741 putative DNA binding site [nucleotide binding]; other site 698962003742 metal binding site [ion binding]; metal-binding site 698962003743 UvrB/uvrC motif; Region: UVR; pfam02151 698962003744 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 698962003745 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 698962003746 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 698962003747 homopentamer interface [polypeptide binding]; other site 698962003748 active site 698962003749 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 698962003750 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 698962003751 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 698962003752 dimerization interface [polypeptide binding]; other site 698962003753 active site 698962003754 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 698962003755 Lumazine binding domain; Region: Lum_binding; pfam00677 698962003756 Lumazine binding domain; Region: Lum_binding; pfam00677 698962003757 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 698962003758 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 698962003759 catalytic motif [active] 698962003760 Zn binding site [ion binding]; other site 698962003761 RibD C-terminal domain; Region: RibD_C; pfam01872 698962003762 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 698962003763 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 698962003764 substrate binding site [chemical binding]; other site 698962003765 hexamer interface [polypeptide binding]; other site 698962003766 metal binding site [ion binding]; metal-binding site 698962003767 16S rRNA methyltransferase B; Provisional; Region: PRK14902 698962003768 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 698962003769 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 698962003770 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 698962003771 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 698962003772 putative active site [active] 698962003773 substrate binding site [chemical binding]; other site 698962003774 putative cosubstrate binding site; other site 698962003775 catalytic site [active] 698962003776 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 698962003777 substrate binding site [chemical binding]; other site 698962003778 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 698962003779 active site 698962003780 catalytic residues [active] 698962003781 metal binding site [ion binding]; metal-binding site 698962003782 primosome assembly protein PriA; Provisional; Region: PRK14873 698962003783 S-adenosylmethionine synthetase; Validated; Region: PRK05250 698962003784 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 698962003785 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 698962003786 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 698962003787 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 698962003788 Flavoprotein; Region: Flavoprotein; pfam02441 698962003789 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 698962003790 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 698962003791 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 698962003792 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 698962003793 catalytic site [active] 698962003794 G-X2-G-X-G-K; other site 698962003795 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 698962003796 active site 698962003797 dimer interface [polypeptide binding]; other site 698962003798 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 698962003799 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 698962003800 ATP-grasp domain; Region: ATP-grasp_4; cl17255 698962003801 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 698962003802 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 698962003803 ATP-grasp domain; Region: ATP-grasp_4; cl17255 698962003804 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 698962003805 IMP binding site; other site 698962003806 dimer interface [polypeptide binding]; other site 698962003807 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 698962003808 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 698962003809 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 698962003810 catalytic site [active] 698962003811 subunit interface [polypeptide binding]; other site 698962003812 dihydroorotase; Validated; Region: pyrC; PRK09357 698962003813 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 698962003814 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 698962003815 active site 698962003816 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 698962003817 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 698962003818 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 698962003819 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 698962003820 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962003821 active site 698962003822 hydrophobic ligand binding site; other site 698962003823 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 698962003824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962003825 TIGR01777 family protein; Region: yfcH 698962003826 NAD(P) binding site [chemical binding]; other site 698962003827 active site 698962003828 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 698962003829 elongation factor P; Validated; Region: PRK00529 698962003830 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 698962003831 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 698962003832 RNA binding site [nucleotide binding]; other site 698962003833 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 698962003834 RNA binding site [nucleotide binding]; other site 698962003835 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 698962003836 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 698962003837 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 698962003838 active site 698962003839 Dehydroquinase class II; Region: DHquinase_II; pfam01220 698962003840 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 698962003841 trimer interface [polypeptide binding]; other site 698962003842 active site 698962003843 dimer interface [polypeptide binding]; other site 698962003844 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 698962003845 active site 698962003846 dimer interface [polypeptide binding]; other site 698962003847 metal binding site [ion binding]; metal-binding site 698962003848 shikimate kinase; Reviewed; Region: aroK; PRK00131 698962003849 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 698962003850 ADP binding site [chemical binding]; other site 698962003851 magnesium binding site [ion binding]; other site 698962003852 putative shikimate binding site; other site 698962003853 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 698962003854 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 698962003855 Tetramer interface [polypeptide binding]; other site 698962003856 active site 698962003857 FMN-binding site [chemical binding]; other site 698962003858 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 698962003859 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 698962003860 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 698962003861 shikimate binding site; other site 698962003862 NAD(P) binding site [chemical binding]; other site 698962003863 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 698962003864 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 698962003865 dimerization interface [polypeptide binding]; other site 698962003866 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 698962003867 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 698962003868 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 698962003869 motif 1; other site 698962003870 active site 698962003871 motif 2; other site 698962003872 motif 3; other site 698962003873 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 698962003874 DHHA1 domain; Region: DHHA1; pfam02272 698962003875 recombination factor protein RarA; Reviewed; Region: PRK13342 698962003876 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 698962003877 Walker A motif; other site 698962003878 ATP binding site [chemical binding]; other site 698962003879 Walker B motif; other site 698962003880 arginine finger; other site 698962003881 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 698962003882 Phosphotransferase enzyme family; Region: APH; pfam01636 698962003883 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 698962003884 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 698962003885 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 698962003886 dimer interface [polypeptide binding]; other site 698962003887 anticodon binding site; other site 698962003888 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 698962003889 homodimer interface [polypeptide binding]; other site 698962003890 motif 1; other site 698962003891 active site 698962003892 motif 2; other site 698962003893 GAD domain; Region: GAD; pfam02938 698962003894 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 698962003895 active site 698962003896 motif 3; other site 698962003897 Predicted metalloprotease [General function prediction only]; Region: COG2321 698962003898 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 698962003899 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 698962003900 ATP binding site [chemical binding]; other site 698962003901 putative Mg++ binding site [ion binding]; other site 698962003902 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 698962003903 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 698962003904 nucleotide binding region [chemical binding]; other site 698962003905 ATP-binding site [chemical binding]; other site 698962003906 Predicted membrane protein [Function unknown]; Region: COG1511 698962003907 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 698962003908 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962003909 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962003910 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962003911 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 698962003912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962003913 Q-loop/lid; other site 698962003914 ABC transporter signature motif; other site 698962003915 Walker B; other site 698962003916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962003917 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962003918 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 698962003919 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 698962003920 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 698962003921 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 698962003922 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 698962003923 dimer interface [polypeptide binding]; other site 698962003924 motif 1; other site 698962003925 active site 698962003926 motif 2; other site 698962003927 motif 3; other site 698962003928 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 698962003929 anticodon binding site; other site 698962003930 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 698962003931 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 698962003932 dimer interface [polypeptide binding]; other site 698962003933 catalytic triad [active] 698962003934 peroxidatic and resolving cysteines [active] 698962003935 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 698962003936 active site 698962003937 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 698962003938 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 698962003939 Zn2+ binding site [ion binding]; other site 698962003940 Mg2+ binding site [ion binding]; other site 698962003941 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 698962003942 synthetase active site [active] 698962003943 NTP binding site [chemical binding]; other site 698962003944 metal binding site [ion binding]; metal-binding site 698962003945 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 698962003946 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 698962003947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962003948 active site 698962003949 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 698962003950 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 698962003951 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 698962003952 Protein export membrane protein; Region: SecD_SecF; cl14618 698962003953 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 698962003954 Protein export membrane protein; Region: SecD_SecF; cl14618 698962003955 Preprotein translocase subunit; Region: YajC; pfam02699 698962003956 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 698962003957 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 698962003958 Walker A motif; other site 698962003959 ATP binding site [chemical binding]; other site 698962003960 Walker B motif; other site 698962003961 arginine finger; other site 698962003962 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 698962003963 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 698962003964 RuvA N terminal domain; Region: RuvA_N; pfam01330 698962003965 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 698962003966 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 698962003967 active site 698962003968 putative DNA-binding cleft [nucleotide binding]; other site 698962003969 dimer interface [polypeptide binding]; other site 698962003970 hypothetical protein; Validated; Region: PRK00110 698962003971 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 698962003972 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 698962003973 active site 698962003974 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 698962003975 catalytic triad [active] 698962003976 dimer interface [polypeptide binding]; other site 698962003977 putative transposase OrfB; Reviewed; Region: PHA02517 698962003978 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962003979 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962003980 Integrase core domain; Region: rve; pfam00665 698962003981 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 698962003982 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 698962003983 Nitronate monooxygenase; Region: NMO; pfam03060 698962003984 FMN binding site [chemical binding]; other site 698962003985 substrate binding site [chemical binding]; other site 698962003986 putative catalytic residue [active] 698962003987 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 698962003988 Replicase family; Region: Replicase; pfam03090 698962003989 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 698962003990 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 698962003991 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 698962003992 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 698962003993 catalytic residues [active] 698962003994 catalytic nucleophile [active] 698962003995 Presynaptic Site I dimer interface [polypeptide binding]; other site 698962003996 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 698962003997 Synaptic Flat tetramer interface [polypeptide binding]; other site 698962003998 Synaptic Site I dimer interface [polypeptide binding]; other site 698962003999 DNA binding site [nucleotide binding] 698962004000 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962004001 MULE transposase domain; Region: MULE; pfam10551 698962004002 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 698962004003 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 698962004004 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 698962004005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 698962004006 catalytic residue [active] 698962004007 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 698962004008 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 698962004009 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 698962004010 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 698962004011 putative acyl-acceptor binding pocket; other site 698962004012 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 698962004013 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 698962004014 nucleotide binding site/active site [active] 698962004015 HIT family signature motif; other site 698962004016 catalytic residue [active] 698962004017 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 698962004018 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 698962004019 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 698962004020 active site 698962004021 dimer interface [polypeptide binding]; other site 698962004022 motif 1; other site 698962004023 motif 2; other site 698962004024 motif 3; other site 698962004025 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 698962004026 anticodon binding site; other site 698962004027 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 698962004028 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 698962004029 Protein of unknown function (DUF461); Region: DUF461; pfam04314 698962004030 CopC domain; Region: CopC; cl01012 698962004031 hypothetical protein; Provisional; Region: PRK14059 698962004032 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 698962004033 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 698962004034 SelR domain; Region: SelR; pfam01641 698962004035 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 698962004036 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 698962004037 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 698962004038 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 698962004039 catalytic site [active] 698962004040 putative active site [active] 698962004041 putative substrate binding site [chemical binding]; other site 698962004042 HRDC domain; Region: HRDC; pfam00570 698962004043 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 698962004044 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 698962004045 TPP-binding site; other site 698962004046 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 698962004047 PYR/PP interface [polypeptide binding]; other site 698962004048 dimer interface [polypeptide binding]; other site 698962004049 TPP binding site [chemical binding]; other site 698962004050 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 698962004051 TRAM domain; Region: TRAM; cl01282 698962004052 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 698962004053 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 698962004054 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 698962004055 trimer interface [polypeptide binding]; other site 698962004056 active site 698962004057 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 698962004058 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 698962004059 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 698962004060 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 698962004061 active site 698962004062 dimerization interface [polypeptide binding]; other site 698962004063 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 698962004064 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 698962004065 nucleotide binding site [chemical binding]; other site 698962004066 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 698962004067 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 698962004068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962004069 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 698962004070 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 698962004071 DNA binding residues [nucleotide binding] 698962004072 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 698962004073 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 698962004074 ATP binding site [chemical binding]; other site 698962004075 putative Mg++ binding site [ion binding]; other site 698962004076 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 698962004077 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 698962004078 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 698962004079 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 698962004080 S-adenosylmethionine binding site [chemical binding]; other site 698962004081 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 698962004082 putative active site [active] 698962004083 dimerization interface [polypeptide binding]; other site 698962004084 putative tRNAtyr binding site [nucleotide binding]; other site 698962004085 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 698962004086 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 698962004087 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962004088 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 698962004089 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 698962004090 DNA binding residues [nucleotide binding] 698962004091 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 698962004092 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 698962004093 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 698962004094 FeoA domain; Region: FeoA; cl00838 698962004095 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 698962004096 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 698962004097 NAD binding site [chemical binding]; other site 698962004098 homodimer interface [polypeptide binding]; other site 698962004099 active site 698962004100 substrate binding site [chemical binding]; other site 698962004101 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 698962004102 PAC2 family; Region: PAC2; pfam09754 698962004103 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 698962004104 ATP binding site [chemical binding]; other site 698962004105 putative Mg++ binding site [ion binding]; other site 698962004106 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 698962004107 nucleotide binding region [chemical binding]; other site 698962004108 ATP-binding site [chemical binding]; other site 698962004109 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 698962004110 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 698962004111 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 698962004112 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 698962004113 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 698962004114 dimer interface [polypeptide binding]; other site 698962004115 decamer (pentamer of dimers) interface [polypeptide binding]; other site 698962004116 catalytic triad [active] 698962004117 peroxidatic and resolving cysteines [active] 698962004118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 698962004119 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 698962004120 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 698962004121 dimerization interface [polypeptide binding]; other site 698962004122 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 698962004123 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 698962004124 ATP binding site [chemical binding]; other site 698962004125 putative Mg++ binding site [ion binding]; other site 698962004126 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 698962004127 nucleotide binding region [chemical binding]; other site 698962004128 ATP-binding site [chemical binding]; other site 698962004129 Helicase associated domain (HA2); Region: HA2; pfam04408 698962004130 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 698962004131 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 698962004132 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 698962004133 ATP cone domain; Region: ATP-cone; pfam03477 698962004134 LexA repressor; Validated; Region: PRK00215 698962004135 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 698962004136 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 698962004137 Catalytic site [active] 698962004138 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 698962004139 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 698962004140 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 698962004141 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 698962004142 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 698962004143 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 698962004144 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 698962004145 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 698962004146 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 698962004147 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 698962004148 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 698962004149 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 698962004150 putative substrate binding site [chemical binding]; other site 698962004151 putative ATP binding site [chemical binding]; other site 698962004152 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 698962004153 dimerization domain swap beta strand [polypeptide binding]; other site 698962004154 regulatory protein interface [polypeptide binding]; other site 698962004155 active site 698962004156 regulatory phosphorylation site [posttranslational modification]; other site 698962004157 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 698962004158 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 698962004159 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 698962004160 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 698962004161 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 698962004162 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 698962004163 GTPases [General function prediction only]; Region: HflX; COG2262 698962004164 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 698962004165 HflX GTPase family; Region: HflX; cd01878 698962004166 G1 box; other site 698962004167 GTP/Mg2+ binding site [chemical binding]; other site 698962004168 Switch I region; other site 698962004169 G2 box; other site 698962004170 G3 box; other site 698962004171 Switch II region; other site 698962004172 G4 box; other site 698962004173 G5 box; other site 698962004174 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 698962004175 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 698962004176 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 698962004177 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 698962004178 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 698962004179 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 698962004180 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 698962004181 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 698962004182 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 698962004183 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 698962004184 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 698962004185 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 698962004186 FeS/SAM binding site; other site 698962004187 recombination regulator RecX; Reviewed; Region: recX; PRK00117 698962004188 recombinase A; Provisional; Region: recA; PRK09354 698962004189 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 698962004190 hexamer interface [polypeptide binding]; other site 698962004191 Walker A motif; other site 698962004192 ATP binding site [chemical binding]; other site 698962004193 Walker B motif; other site 698962004194 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 698962004195 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 698962004196 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 698962004197 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 698962004198 Walker A/P-loop; other site 698962004199 ATP binding site [chemical binding]; other site 698962004200 Q-loop/lid; other site 698962004201 ABC transporter signature motif; other site 698962004202 Walker B; other site 698962004203 D-loop; other site 698962004204 H-loop/switch region; other site 698962004205 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 698962004206 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 698962004207 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 698962004208 sequence-specific DNA binding site [nucleotide binding]; other site 698962004209 salt bridge; other site 698962004210 Competence-damaged protein; Region: CinA; pfam02464 698962004211 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 698962004212 YCII-related domain; Region: YCII; cl00999 698962004213 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 698962004214 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 698962004215 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 698962004216 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 698962004217 TIGR03085 family protein; Region: TIGR03085 698962004218 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 698962004219 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 698962004220 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 698962004221 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 698962004222 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 698962004223 dimer interface [polypeptide binding]; other site 698962004224 active site 698962004225 catalytic residue [active] 698962004226 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 698962004227 dihydrodipicolinate reductase; Provisional; Region: PRK00048 698962004228 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 698962004229 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 698962004230 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 698962004231 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 698962004232 oligomer interface [polypeptide binding]; other site 698962004233 RNA binding site [nucleotide binding]; other site 698962004234 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 698962004235 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 698962004236 RNase E interface [polypeptide binding]; other site 698962004237 trimer interface [polypeptide binding]; other site 698962004238 active site 698962004239 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 698962004240 putative nucleic acid binding region [nucleotide binding]; other site 698962004241 G-X-X-G motif; other site 698962004242 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 698962004243 RNA binding site [nucleotide binding]; other site 698962004244 domain interface; other site 698962004245 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 698962004246 16S/18S rRNA binding site [nucleotide binding]; other site 698962004247 S13e-L30e interaction site [polypeptide binding]; other site 698962004248 25S rRNA binding site [nucleotide binding]; other site 698962004249 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 698962004250 active site 698962004251 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 698962004252 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 698962004253 active site 698962004254 Riboflavin kinase; Region: Flavokinase; smart00904 698962004255 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 698962004256 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 698962004257 RNA binding site [nucleotide binding]; other site 698962004258 active site 698962004259 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 698962004260 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 698962004261 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 698962004262 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 698962004263 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 698962004264 active site 698962004265 metal binding site [ion binding]; metal-binding site 698962004266 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 698962004267 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 698962004268 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 698962004269 DHH family; Region: DHH; pfam01368 698962004270 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 698962004271 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 698962004272 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 698962004273 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 698962004274 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 698962004275 G1 box; other site 698962004276 putative GEF interaction site [polypeptide binding]; other site 698962004277 GTP/Mg2+ binding site [chemical binding]; other site 698962004278 Switch I region; other site 698962004279 G2 box; other site 698962004280 G3 box; other site 698962004281 Switch II region; other site 698962004282 G4 box; other site 698962004283 G5 box; other site 698962004284 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 698962004285 Translation-initiation factor 2; Region: IF-2; pfam11987 698962004286 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 698962004287 Protein of unknown function (DUF448); Region: DUF448; pfam04296 698962004288 putative RNA binding cleft [nucleotide binding]; other site 698962004289 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 698962004290 NusA N-terminal domain; Region: NusA_N; pfam08529 698962004291 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 698962004292 RNA binding site [nucleotide binding]; other site 698962004293 homodimer interface [polypeptide binding]; other site 698962004294 NusA-like KH domain; Region: KH_5; pfam13184 698962004295 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 698962004296 G-X-X-G motif; other site 698962004297 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 698962004298 Sm and related proteins; Region: Sm_like; cl00259 698962004299 prolyl-tRNA synthetase; Provisional; Region: PRK09194 698962004300 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 698962004301 dimer interface [polypeptide binding]; other site 698962004302 motif 1; other site 698962004303 active site 698962004304 motif 2; other site 698962004305 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 698962004306 putative deacylase active site [active] 698962004307 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 698962004308 active site 698962004309 motif 3; other site 698962004310 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 698962004311 anticodon binding site; other site 698962004312 hypothetical protein; Validated; Region: PRK02101 698962004313 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 698962004314 active site 698962004315 SAM binding site [chemical binding]; other site 698962004316 homodimer interface [polypeptide binding]; other site 698962004317 Uncharacterized conserved protein [Function unknown]; Region: COG0397 698962004318 hypothetical protein; Validated; Region: PRK00029 698962004319 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 698962004320 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 698962004321 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 698962004322 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 698962004323 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 698962004324 catalytic triad [active] 698962004325 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 698962004326 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 698962004327 Walker A motif; other site 698962004328 homodimer interface [polypeptide binding]; other site 698962004329 ATP binding site [chemical binding]; other site 698962004330 hydroxycobalamin binding site [chemical binding]; other site 698962004331 Walker B motif; other site 698962004332 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 698962004333 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 698962004334 metal ion-dependent adhesion site (MIDAS); other site 698962004335 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 698962004336 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 698962004337 Walker A motif; other site 698962004338 ATP binding site [chemical binding]; other site 698962004339 Walker B motif; other site 698962004340 arginine finger; other site 698962004341 malate:quinone oxidoreductase; Validated; Region: PRK05257 698962004342 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 698962004343 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 698962004344 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 698962004345 mycothione reductase; Region: mycothione_red; TIGR03452 698962004346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962004347 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 698962004348 cobyric acid synthase; Provisional; Region: PRK00784 698962004349 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 698962004350 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 698962004351 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 698962004352 catalytic triad [active] 698962004353 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 698962004354 active site 698962004355 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 698962004356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 698962004357 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 698962004358 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 698962004359 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 698962004360 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 698962004361 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 698962004362 active site 698962004363 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 698962004364 protein binding site [polypeptide binding]; other site 698962004365 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 698962004366 putative substrate binding region [chemical binding]; other site 698962004367 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 698962004368 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 698962004369 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 698962004370 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 698962004371 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 698962004372 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 698962004373 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 698962004374 FeS/SAM binding site; other site 698962004375 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 698962004376 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 698962004377 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 698962004378 ribosome recycling factor; Reviewed; Region: frr; PRK00083 698962004379 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 698962004380 hinge region; other site 698962004381 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 698962004382 putative nucleotide binding site [chemical binding]; other site 698962004383 uridine monophosphate binding site [chemical binding]; other site 698962004384 homohexameric interface [polypeptide binding]; other site 698962004385 elongation factor Ts; Provisional; Region: tsf; PRK09377 698962004386 UBA/TS-N domain; Region: UBA; pfam00627 698962004387 Elongation factor TS; Region: EF_TS; pfam00889 698962004388 Elongation factor TS; Region: EF_TS; pfam00889 698962004389 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 698962004390 rRNA interaction site [nucleotide binding]; other site 698962004391 S8 interaction site; other site 698962004392 putative laminin-1 binding site; other site 698962004393 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 698962004394 Peptidase family M23; Region: Peptidase_M23; pfam01551 698962004395 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 698962004396 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 698962004397 active site 698962004398 DNA binding site [nucleotide binding] 698962004399 Int/Topo IB signature motif; other site 698962004400 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 698962004401 DNA protecting protein DprA; Region: dprA; TIGR00732 698962004402 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 698962004403 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 698962004404 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 698962004405 Walker A motif; other site 698962004406 ATP binding site [chemical binding]; other site 698962004407 Walker B motif; other site 698962004408 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 698962004409 hypothetical protein; Reviewed; Region: PRK12497 698962004410 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 698962004411 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 698962004412 RNA/DNA hybrid binding site [nucleotide binding]; other site 698962004413 active site 698962004414 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 698962004415 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 698962004416 Catalytic site [active] 698962004417 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 698962004418 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 698962004419 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 698962004420 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 698962004421 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 698962004422 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 698962004423 RNA binding site [nucleotide binding]; other site 698962004424 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 698962004425 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 698962004426 RimM N-terminal domain; Region: RimM; pfam01782 698962004427 PRC-barrel domain; Region: PRC; pfam05239 698962004428 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 698962004429 signal recognition particle protein; Provisional; Region: PRK10867 698962004430 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 698962004431 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 698962004432 P loop; other site 698962004433 GTP binding site [chemical binding]; other site 698962004434 Signal peptide binding domain; Region: SRP_SPB; pfam02978 698962004435 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 698962004436 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 698962004437 metal binding triad; other site 698962004438 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 698962004439 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 698962004440 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 698962004441 Nitrogen regulatory protein P-II; Region: P-II; smart00938 698962004442 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 698962004443 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 698962004444 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 698962004445 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 698962004446 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 698962004447 Walker A/P-loop; other site 698962004448 ATP binding site [chemical binding]; other site 698962004449 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 698962004450 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 698962004451 ABC transporter signature motif; other site 698962004452 Walker B; other site 698962004453 D-loop; other site 698962004454 H-loop/switch region; other site 698962004455 Acylphosphatase; Region: Acylphosphatase; cl00551 698962004456 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 698962004457 amino acid carrier protein; Region: agcS; TIGR00835 698962004458 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 698962004459 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 698962004460 DNA binding site [nucleotide binding] 698962004461 catalytic residue [active] 698962004462 H2TH interface [polypeptide binding]; other site 698962004463 putative catalytic residues [active] 698962004464 turnover-facilitating residue; other site 698962004465 intercalation triad [nucleotide binding]; other site 698962004466 8OG recognition residue [nucleotide binding]; other site 698962004467 putative reading head residues; other site 698962004468 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 698962004469 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 698962004470 ribonuclease III; Reviewed; Region: rnc; PRK00102 698962004471 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 698962004472 dimerization interface [polypeptide binding]; other site 698962004473 active site 698962004474 metal binding site [ion binding]; metal-binding site 698962004475 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 698962004476 dsRNA binding site [nucleotide binding]; other site 698962004477 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 698962004478 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 698962004479 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 698962004480 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 698962004481 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; cl09098 698962004482 active site 698962004483 catalytic site [active] 698962004484 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 698962004485 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 698962004486 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 698962004487 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 698962004488 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 698962004489 RNA binding site [nucleotide binding]; other site 698962004490 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 698962004491 Winged helix-turn helix; Region: HTH_29; pfam13551 698962004492 glutamate dehydrogenase; Provisional; Region: PRK09414 698962004493 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 698962004494 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 698962004495 NAD(P) binding site [chemical binding]; other site 698962004496 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 698962004497 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 698962004498 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 698962004499 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 698962004500 metal binding site [ion binding]; metal-binding site 698962004501 putative dimer interface [polypeptide binding]; other site 698962004502 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 698962004503 homodimer interface [polypeptide binding]; other site 698962004504 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 698962004505 active site pocket [active] 698962004506 pyruvate kinase; Provisional; Region: PRK06247 698962004507 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 698962004508 domain interfaces; other site 698962004509 active site 698962004510 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 698962004511 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 698962004512 active site 698962004513 ribulose/triose binding site [chemical binding]; other site 698962004514 phosphate binding site [ion binding]; other site 698962004515 substrate (anthranilate) binding pocket [chemical binding]; other site 698962004516 product (indole) binding pocket [chemical binding]; other site 698962004517 trp region conserved hypothetical membrane protein; Region: trp_oprn_chp; TIGR02234 698962004518 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 698962004519 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 698962004520 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 698962004521 substrate binding site [chemical binding]; other site 698962004522 glutamase interaction surface [polypeptide binding]; other site 698962004523 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 698962004524 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 698962004525 active site 698962004526 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 698962004527 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 698962004528 catalytic residues [active] 698962004529 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 698962004530 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 698962004531 putative active site [active] 698962004532 oxyanion strand; other site 698962004533 catalytic triad [active] 698962004534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962004535 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 698962004536 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 698962004537 putative active site pocket [active] 698962004538 4-fold oligomerization interface [polypeptide binding]; other site 698962004539 metal binding residues [ion binding]; metal-binding site 698962004540 3-fold/trimer interface [polypeptide binding]; other site 698962004541 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 698962004542 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 698962004543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962004544 homodimer interface [polypeptide binding]; other site 698962004545 catalytic residue [active] 698962004546 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 698962004547 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 698962004548 NAD binding site [chemical binding]; other site 698962004549 dimerization interface [polypeptide binding]; other site 698962004550 product binding site; other site 698962004551 substrate binding site [chemical binding]; other site 698962004552 zinc binding site [ion binding]; other site 698962004553 catalytic residues [active] 698962004554 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 698962004555 tetracycline repressor protein TetR; Provisional; Region: PRK13756 698962004556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962004557 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 698962004558 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 698962004559 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 698962004560 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 698962004561 active site 698962004562 catalytic site [active] 698962004563 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 698962004564 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 698962004565 active site 698962004566 catalytic site [active] 698962004567 substrate binding site [chemical binding]; other site 698962004568 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 698962004569 synthetase active site [active] 698962004570 NTP binding site [chemical binding]; other site 698962004571 metal binding site [ion binding]; metal-binding site 698962004572 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 698962004573 RNA binding surface [nucleotide binding]; other site 698962004574 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 698962004575 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 698962004576 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 698962004577 threonine dehydratase; Validated; Region: PRK08639 698962004578 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 698962004579 tetramer interface [polypeptide binding]; other site 698962004580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962004581 catalytic residue [active] 698962004582 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 698962004583 putative Ile/Val binding site [chemical binding]; other site 698962004584 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 698962004585 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 698962004586 active site 698962004587 PHP Thumb interface [polypeptide binding]; other site 698962004588 metal binding site [ion binding]; metal-binding site 698962004589 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 698962004590 generic binding surface II; other site 698962004591 generic binding surface I; other site 698962004592 Predicted permeases [General function prediction only]; Region: RarD; COG2962 698962004593 EamA-like transporter family; Region: EamA; cl17759 698962004594 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 698962004595 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 698962004596 RNA binding surface [nucleotide binding]; other site 698962004597 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 698962004598 active site 698962004599 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 698962004600 lipoprotein signal peptidase; Provisional; Region: PRK14787 698962004601 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 698962004602 active site 698962004603 homotetramer interface [polypeptide binding]; other site 698962004604 homodimer interface [polypeptide binding]; other site 698962004605 DNA polymerase IV; Provisional; Region: PRK03348 698962004606 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 698962004607 active site 698962004608 DNA binding site [nucleotide binding] 698962004609 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 698962004610 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 698962004611 HIGH motif; other site 698962004612 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 698962004613 active site 698962004614 KMSKS motif; other site 698962004615 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 698962004616 tRNA binding surface [nucleotide binding]; other site 698962004617 anticodon binding site; other site 698962004618 DivIVA domain; Region: DivI1A_domain; TIGR03544 698962004619 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 698962004620 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 698962004621 YGGT family; Region: YGGT; cl00508 698962004622 Protein of unknown function (DUF552); Region: DUF552; cl00775 698962004623 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 698962004624 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 698962004625 cell division protein FtsZ; Validated; Region: PRK09330 698962004626 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 698962004627 nucleotide binding site [chemical binding]; other site 698962004628 SulA interaction site; other site 698962004629 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 698962004630 Cell division protein FtsQ; Region: FtsQ; pfam03799 698962004631 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 698962004632 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 698962004633 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 698962004634 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 698962004635 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 698962004636 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 698962004637 active site 698962004638 homodimer interface [polypeptide binding]; other site 698962004639 cell division protein FtsW; Region: ftsW; TIGR02614 698962004640 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 698962004641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 698962004642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 698962004643 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 698962004644 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 698962004645 Mg++ binding site [ion binding]; other site 698962004646 putative catalytic motif [active] 698962004647 putative substrate binding site [chemical binding]; other site 698962004648 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 698962004649 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 698962004650 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 698962004651 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 698962004652 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 698962004653 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 698962004654 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 698962004655 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 698962004656 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 698962004657 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 698962004658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 698962004659 MraW methylase family; Region: Methyltransf_5; cl17771 698962004660 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 698962004661 cell division protein MraZ; Reviewed; Region: PRK00326 698962004662 MraZ protein; Region: MraZ; pfam02381 698962004663 MraZ protein; Region: MraZ; pfam02381 698962004664 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 698962004665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962004666 Coenzyme A binding pocket [chemical binding]; other site 698962004667 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 698962004668 FAD binding site [chemical binding]; other site 698962004669 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 698962004670 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 698962004671 substrate binding pocket [chemical binding]; other site 698962004672 chain length determination region; other site 698962004673 substrate-Mg2+ binding site; other site 698962004674 catalytic residues [active] 698962004675 aspartate-rich region 1; other site 698962004676 active site lid residues [active] 698962004677 aspartate-rich region 2; other site 698962004678 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 698962004679 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 698962004680 Catalytic domain of Protein Kinases; Region: PKc; cd00180 698962004681 active site 698962004682 ATP binding site [chemical binding]; other site 698962004683 substrate binding site [chemical binding]; other site 698962004684 activation loop (A-loop); other site 698962004685 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 698962004686 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 698962004687 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 698962004688 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 698962004689 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 698962004690 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 698962004691 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 698962004692 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 698962004693 putative acyl-acceptor binding pocket; other site 698962004694 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 698962004695 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 698962004696 nucleotide binding site [chemical binding]; other site 698962004697 Tesmin/TSO1-like CXC domain; Region: CXC; pfam03638 698962004698 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 698962004699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 698962004700 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 698962004701 NlpC/P60 family; Region: NLPC_P60; pfam00877 698962004702 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 698962004703 NlpC/P60 family; Region: NLPC_P60; pfam00877 698962004704 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 698962004705 heme bH binding site [chemical binding]; other site 698962004706 intrachain domain interface; other site 698962004707 heme bL binding site [chemical binding]; other site 698962004708 interchain domain interface [polypeptide binding]; other site 698962004709 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 698962004710 Qo binding site; other site 698962004711 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 698962004712 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 698962004713 iron-sulfur cluster [ion binding]; other site 698962004714 [2Fe-2S] cluster binding site [ion binding]; other site 698962004715 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 698962004716 Cytochrome c; Region: Cytochrom_C; pfam00034 698962004717 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 698962004718 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 698962004719 Subunit I/III interface [polypeptide binding]; other site 698962004720 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 698962004721 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 698962004722 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 698962004723 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 698962004724 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 698962004725 active site 698962004726 dimer interface [polypeptide binding]; other site 698962004727 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 698962004728 Ligand Binding Site [chemical binding]; other site 698962004729 Molecular Tunnel; other site 698962004730 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 698962004731 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 698962004732 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 698962004733 homotrimer interface [polypeptide binding]; other site 698962004734 Walker A motif; other site 698962004735 GTP binding site [chemical binding]; other site 698962004736 Walker B motif; other site 698962004737 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 698962004738 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 698962004739 putative dimer interface [polypeptide binding]; other site 698962004740 active site pocket [active] 698962004741 putative cataytic base [active] 698962004742 cobalamin synthase; Reviewed; Region: cobS; PRK00235 698962004743 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 698962004744 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 698962004745 homodimer interface [polypeptide binding]; other site 698962004746 substrate-cofactor binding pocket; other site 698962004747 catalytic residue [active] 698962004748 multifunctional aminopeptidase A; Provisional; Region: PRK00913 698962004749 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 698962004750 interface (dimer of trimers) [polypeptide binding]; other site 698962004751 Substrate-binding/catalytic site; other site 698962004752 Zn-binding sites [ion binding]; other site 698962004753 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 698962004754 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 698962004755 E3 interaction surface; other site 698962004756 lipoyl attachment site [posttranslational modification]; other site 698962004757 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 698962004758 E3 interaction surface; other site 698962004759 lipoyl attachment site [posttranslational modification]; other site 698962004760 e3 binding domain; Region: E3_binding; pfam02817 698962004761 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 698962004762 lipoate-protein ligase B; Provisional; Region: PRK14345 698962004763 lipoyl synthase; Provisional; Region: PRK05481 698962004764 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 698962004765 FeS/SAM binding site; other site 698962004766 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 698962004767 RDD family; Region: RDD; pfam06271 698962004768 glutamine synthetase, type I; Region: GlnA; TIGR00653 698962004769 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 698962004770 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 698962004771 Predicted peptidase [General function prediction only]; Region: COG4099 698962004772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 698962004773 Predicted permease [General function prediction only]; Region: COG2056 698962004774 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 698962004775 Transcriptional regulators [Transcription]; Region: FadR; COG2186 698962004776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962004777 DNA-binding site [nucleotide binding]; DNA binding site 698962004778 FCD domain; Region: FCD; pfam07729 698962004779 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 698962004780 putative substrate translocation pore; other site 698962004781 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_17; cd04676 698962004782 nudix motif; other site 698962004783 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 698962004784 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 698962004785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962004786 catalytic residue [active] 698962004787 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; cl09098 698962004788 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 698962004789 heme binding pocket [chemical binding]; other site 698962004790 heme ligand [chemical binding]; other site 698962004791 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 698962004792 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 698962004793 metal binding triad; other site 698962004794 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 698962004795 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 698962004796 metal binding triad; other site 698962004797 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 698962004798 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 698962004799 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 698962004800 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 698962004801 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 698962004802 putative active site; other site 698962004803 putative metal binding residues [ion binding]; other site 698962004804 signature motif; other site 698962004805 putative triphosphate binding site [ion binding]; other site 698962004806 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 698962004807 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 698962004808 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 698962004809 RNB domain; Region: RNB; pfam00773 698962004810 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962004811 Integrase core domain; Region: rve; pfam00665 698962004812 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 698962004813 synthetase active site [active] 698962004814 NTP binding site [chemical binding]; other site 698962004815 metal binding site [ion binding]; metal-binding site 698962004816 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 698962004817 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 698962004818 Predicted membrane protein [General function prediction only]; Region: COG4194 698962004819 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 698962004820 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 698962004821 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 698962004822 RNA/DNA hybrid binding site [nucleotide binding]; other site 698962004823 active site 698962004824 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 698962004825 catalytic core [active] 698962004826 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 698962004827 Putative zinc ribbon domain; Region: DUF164; pfam02591 698962004828 Uncharacterized conserved protein [Function unknown]; Region: COG0327 698962004829 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 698962004830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 698962004831 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 698962004832 hypothetical protein; Provisional; Region: PRK07908 698962004833 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 698962004834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962004835 homodimer interface [polypeptide binding]; other site 698962004836 catalytic residue [active] 698962004837 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 698962004838 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 698962004839 motif II; other site 698962004840 Low molecular weight phosphatase family; Region: LMWPc; cd00115 698962004841 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 698962004842 active site 698962004843 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 698962004844 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 698962004845 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 698962004846 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 698962004847 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 698962004848 dimer interface [polypeptide binding]; other site 698962004849 TPP-binding site [chemical binding]; other site 698962004850 Electron transfer DM13; Region: DM13; pfam10517 698962004851 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 698962004852 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 698962004853 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 698962004854 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 698962004855 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962004856 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 698962004857 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 698962004858 active site 698962004859 motif I; other site 698962004860 motif II; other site 698962004861 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 698962004862 motif II; other site 698962004863 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 698962004864 Beta-lactamase; Region: Beta-lactamase; pfam00144 698962004865 Predicted membrane protein [Function unknown]; Region: COG2860 698962004866 UPF0126 domain; Region: UPF0126; pfam03458 698962004867 UPF0126 domain; Region: UPF0126; pfam03458 698962004868 DNA primase; Validated; Region: dnaG; PRK05667 698962004869 CHC2 zinc finger; Region: zf-CHC2; pfam01807 698962004870 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 698962004871 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 698962004872 active site 698962004873 metal binding site [ion binding]; metal-binding site 698962004874 interdomain interaction site; other site 698962004875 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 698962004876 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 698962004877 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 698962004878 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 698962004879 glutaminase active site [active] 698962004880 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 698962004881 dimer interface [polypeptide binding]; other site 698962004882 active site 698962004883 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 698962004884 dimer interface [polypeptide binding]; other site 698962004885 active site 698962004886 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 698962004887 active site 698962004888 barstar interaction site; other site 698962004889 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 698962004890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 698962004891 Zn2+ binding site [ion binding]; other site 698962004892 Mg2+ binding site [ion binding]; other site 698962004893 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 698962004894 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 698962004895 putative active site [active] 698962004896 Repair protein; Region: Repair_PSII; pfam04536 698962004897 glycyl-tRNA synthetase; Provisional; Region: PRK04173 698962004898 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 698962004899 motif 1; other site 698962004900 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 698962004901 active site 698962004902 motif 2; other site 698962004903 motif 3; other site 698962004904 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 698962004905 anticodon binding site; other site 698962004906 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 698962004907 dimerization interface [polypeptide binding]; other site 698962004908 putative DNA binding site [nucleotide binding]; other site 698962004909 putative Zn2+ binding site [ion binding]; other site 698962004910 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 698962004911 metal binding site 2 [ion binding]; metal-binding site 698962004912 putative DNA binding helix; other site 698962004913 metal binding site 1 [ion binding]; metal-binding site 698962004914 dimer interface [polypeptide binding]; other site 698962004915 structural Zn2+ binding site [ion binding]; other site 698962004916 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 698962004917 diiron binding motif [ion binding]; other site 698962004918 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 698962004919 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 698962004920 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 698962004921 catalytic residue [active] 698962004922 putative FPP diphosphate binding site; other site 698962004923 putative FPP binding hydrophobic cleft; other site 698962004924 dimer interface [polypeptide binding]; other site 698962004925 putative IPP diphosphate binding site; other site 698962004926 Recombination protein O N terminal; Region: RecO_N; pfam11967 698962004927 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 698962004928 Recombination protein O C terminal; Region: RecO_C; pfam02565 698962004929 GTPase Era; Reviewed; Region: era; PRK00089 698962004930 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 698962004931 G1 box; other site 698962004932 GTP/Mg2+ binding site [chemical binding]; other site 698962004933 Switch I region; other site 698962004934 G2 box; other site 698962004935 Switch II region; other site 698962004936 G3 box; other site 698962004937 G4 box; other site 698962004938 G5 box; other site 698962004939 KH domain; Region: KH_2; pfam07650 698962004940 pyridoxamine kinase; Validated; Region: PRK05756 698962004941 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 698962004942 dimer interface [polypeptide binding]; other site 698962004943 pyridoxal binding site [chemical binding]; other site 698962004944 ATP binding site [chemical binding]; other site 698962004945 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 698962004946 Domain of unknown function DUF21; Region: DUF21; pfam01595 698962004947 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 698962004948 Transporter associated domain; Region: CorC_HlyC; smart01091 698962004949 metal-binding heat shock protein; Provisional; Region: PRK00016 698962004950 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 698962004951 PhoH-like protein; Region: PhoH; pfam02562 698962004952 RNA methyltransferase, RsmE family; Region: TIGR00046 698962004953 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 698962004954 chaperone protein DnaJ; Provisional; Region: PRK14278 698962004955 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 698962004956 HSP70 interaction site [polypeptide binding]; other site 698962004957 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 698962004958 Zn binding sites [ion binding]; other site 698962004959 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 698962004960 dimer interface [polypeptide binding]; other site 698962004961 coproporphyrinogen III oxidase; Validated; Region: PRK05628 698962004962 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 698962004963 FeS/SAM binding site; other site 698962004964 HemN C-terminal domain; Region: HemN_C; pfam06969 698962004965 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 698962004966 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 698962004967 acyl-activating enzyme (AAE) consensus motif; other site 698962004968 putative AMP binding site [chemical binding]; other site 698962004969 putative active site [active] 698962004970 putative CoA binding site [chemical binding]; other site 698962004971 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 698962004972 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 698962004973 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 698962004974 active site 698962004975 Zn binding site [ion binding]; other site 698962004976 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 698962004977 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 698962004978 substrate binding pocket [chemical binding]; other site 698962004979 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 698962004980 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 698962004981 active site 698962004982 metal binding site [ion binding]; metal-binding site 698962004983 nudix motif; other site 698962004984 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962004985 active site 698962004986 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962004987 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962004988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962004989 Walker A/P-loop; other site 698962004990 ATP binding site [chemical binding]; other site 698962004991 Q-loop/lid; other site 698962004992 ABC transporter signature motif; other site 698962004993 Walker B; other site 698962004994 D-loop; other site 698962004995 H-loop/switch region; other site 698962004996 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 698962004997 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 698962004998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962004999 homodimer interface [polypeptide binding]; other site 698962005000 catalytic residue [active] 698962005001 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 698962005002 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 698962005003 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 698962005004 BCCT family transporter; Region: BCCT; pfam02028 698962005005 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 698962005006 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_6; cd08494 698962005007 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962005008 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 698962005009 dimer interface [polypeptide binding]; other site 698962005010 conserved gate region; other site 698962005011 putative PBP binding loops; other site 698962005012 ABC-ATPase subunit interface; other site 698962005013 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 698962005014 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 698962005015 dimer interface [polypeptide binding]; other site 698962005016 conserved gate region; other site 698962005017 putative PBP binding loops; other site 698962005018 ABC-ATPase subunit interface; other site 698962005019 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 698962005020 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962005021 Walker A/P-loop; other site 698962005022 ATP binding site [chemical binding]; other site 698962005023 Q-loop/lid; other site 698962005024 ABC transporter signature motif; other site 698962005025 Walker B; other site 698962005026 D-loop; other site 698962005027 H-loop/switch region; other site 698962005028 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962005029 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962005030 Walker A/P-loop; other site 698962005031 ATP binding site [chemical binding]; other site 698962005032 Q-loop/lid; other site 698962005033 ABC transporter signature motif; other site 698962005034 Walker B; other site 698962005035 D-loop; other site 698962005036 H-loop/switch region; other site 698962005037 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962005038 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 698962005039 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 698962005040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 698962005041 catalytic residue [active] 698962005042 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 698962005043 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 698962005044 nucleotide binding site [chemical binding]; other site 698962005045 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 698962005046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962005047 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 698962005048 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 698962005049 active site residue [active] 698962005050 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 698962005051 putative homodimer interface [polypeptide binding]; other site 698962005052 putative homotetramer interface [polypeptide binding]; other site 698962005053 putative allosteric switch controlling residues; other site 698962005054 putative metal binding site [ion binding]; other site 698962005055 putative homodimer-homodimer interface [polypeptide binding]; other site 698962005056 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 698962005057 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 698962005058 TrkA-N domain; Region: TrkA_N; pfam02254 698962005059 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 698962005060 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 698962005061 active site 698962005062 tetramer interface [polypeptide binding]; other site 698962005063 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 698962005064 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 698962005065 Methyltransferase domain; Region: Methyltransf_26; pfam13659 698962005066 Mrr N-terminal domain; Region: Mrr_N; pfam14338 698962005067 Restriction endonuclease; Region: Mrr_cat; pfam04471 698962005068 Abi-like protein; Region: Abi_2; pfam07751 698962005069 GTP-binding protein LepA; Provisional; Region: PRK05433 698962005070 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 698962005071 G1 box; other site 698962005072 putative GEF interaction site [polypeptide binding]; other site 698962005073 GTP/Mg2+ binding site [chemical binding]; other site 698962005074 Switch I region; other site 698962005075 G2 box; other site 698962005076 G3 box; other site 698962005077 Switch II region; other site 698962005078 G4 box; other site 698962005079 G5 box; other site 698962005080 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 698962005081 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 698962005082 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 698962005083 PemK-like protein; Region: PemK; pfam02452 698962005084 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 698962005085 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 698962005086 hypothetical protein; Validated; Region: PRK05629 698962005087 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 698962005088 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 698962005089 Competence protein; Region: Competence; pfam03772 698962005090 comEA protein; Region: comE; TIGR01259 698962005091 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 698962005092 helix-hairpin-helix signature motif; other site 698962005093 EDD domain protein, DegV family; Region: DegV; TIGR00762 698962005094 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 698962005095 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 698962005096 catalytic core [active] 698962005097 Oligomerisation domain; Region: Oligomerisation; cl00519 698962005098 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 698962005099 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 698962005100 active site 698962005101 (T/H)XGH motif; other site 698962005102 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 698962005103 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 698962005104 putative catalytic cysteine [active] 698962005105 gamma-glutamyl kinase; Provisional; Region: PRK05429 698962005106 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 698962005107 nucleotide binding site [chemical binding]; other site 698962005108 homotetrameric interface [polypeptide binding]; other site 698962005109 putative phosphate binding site [ion binding]; other site 698962005110 putative allosteric binding site; other site 698962005111 PUA domain; Region: PUA; pfam01472 698962005112 GTPase CgtA; Reviewed; Region: obgE; PRK12296 698962005113 GTP1/OBG; Region: GTP1_OBG; pfam01018 698962005114 Obg GTPase; Region: Obg; cd01898 698962005115 G1 box; other site 698962005116 GTP/Mg2+ binding site [chemical binding]; other site 698962005117 Switch I region; other site 698962005118 G2 box; other site 698962005119 G3 box; other site 698962005120 Switch II region; other site 698962005121 G4 box; other site 698962005122 G5 box; other site 698962005123 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 698962005124 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 698962005125 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 698962005126 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 698962005127 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 698962005128 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 698962005129 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 698962005130 homodimer interface [polypeptide binding]; other site 698962005131 oligonucleotide binding site [chemical binding]; other site 698962005132 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 698962005133 active site 698962005134 multimer interface [polypeptide binding]; other site 698962005135 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 698962005136 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 698962005137 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 698962005138 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 698962005139 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962005140 active site 698962005141 HIGH motif; other site 698962005142 nucleotide binding site [chemical binding]; other site 698962005143 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 698962005144 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 698962005145 active site 698962005146 KMSKS motif; other site 698962005147 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 698962005148 tRNA binding surface [nucleotide binding]; other site 698962005149 anticodon binding site; other site 698962005150 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 698962005151 malate dehydrogenase; Provisional; Region: PRK05442 698962005152 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 698962005153 NAD(P) binding site [chemical binding]; other site 698962005154 dimer interface [polypeptide binding]; other site 698962005155 malate binding site [chemical binding]; other site 698962005156 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962005157 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962005158 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 698962005159 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 698962005160 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 698962005161 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 698962005162 Walker A motif; other site 698962005163 ATP binding site [chemical binding]; other site 698962005164 Walker B motif; other site 698962005165 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 698962005166 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 698962005167 Glutamine amidotransferase class-I; Region: GATase; pfam00117 698962005168 glutamine binding [chemical binding]; other site 698962005169 catalytic triad [active] 698962005170 aminodeoxychorismate synthase component I; Provisional; Region: PRK05877 698962005171 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 698962005172 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 698962005173 substrate-cofactor binding pocket; other site 698962005174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962005175 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 698962005176 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 698962005177 oligomer interface [polypeptide binding]; other site 698962005178 active site residues [active] 698962005179 Clp protease; Region: CLP_protease; pfam00574 698962005180 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 698962005181 oligomer interface [polypeptide binding]; other site 698962005182 active site residues [active] 698962005183 trigger factor; Provisional; Region: tig; PRK01490 698962005184 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 698962005185 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 698962005186 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 698962005187 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 698962005188 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 698962005189 catalytic residues [active] 698962005190 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 698962005191 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 698962005192 Zn binding site [ion binding]; other site 698962005193 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 698962005194 Mechanosensitive ion channel; Region: MS_channel; pfam00924 698962005195 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 698962005196 apolar tunnel; other site 698962005197 heme binding site [chemical binding]; other site 698962005198 dimerization interface [polypeptide binding]; other site 698962005199 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 698962005200 active site 698962005201 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 698962005202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005203 Walker A/P-loop; other site 698962005204 ATP binding site [chemical binding]; other site 698962005205 Q-loop/lid; other site 698962005206 ABC transporter signature motif; other site 698962005207 Walker B; other site 698962005208 D-loop; other site 698962005209 H-loop/switch region; other site 698962005210 ABC transporter; Region: ABC_tran_2; pfam12848 698962005211 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 698962005212 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 698962005213 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 698962005214 dimer interface [polypeptide binding]; other site 698962005215 ssDNA binding site [nucleotide binding]; other site 698962005216 tetramer (dimer of dimers) interface [polypeptide binding]; other site 698962005217 Copper resistance protein D; Region: CopD; pfam05425 698962005218 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 698962005219 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 698962005220 Carbon starvation protein CstA; Region: CstA; pfam02554 698962005221 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 698962005222 Protein of unknown function (DUF466); Region: DUF466; pfam04328 698962005223 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 698962005224 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962005225 putative substrate translocation pore; other site 698962005226 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 698962005227 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 698962005228 NADP binding site [chemical binding]; other site 698962005229 dimer interface [polypeptide binding]; other site 698962005230 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 698962005231 classical (c) SDRs; Region: SDR_c; cd05233 698962005232 NAD(P) binding site [chemical binding]; other site 698962005233 active site 698962005234 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 698962005235 catalytic site [active] 698962005236 putative active site [active] 698962005237 putative substrate binding site [chemical binding]; other site 698962005238 dimer interface [polypeptide binding]; other site 698962005239 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 698962005240 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 698962005241 inhibitor site; inhibition site 698962005242 active site 698962005243 dimer interface [polypeptide binding]; other site 698962005244 catalytic residue [active] 698962005245 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 698962005246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 698962005247 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 698962005248 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 698962005249 Phage-related protein [Function unknown]; Region: COG4695; cl01923 698962005250 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 698962005251 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 698962005252 active site 698962005253 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 698962005254 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 698962005255 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 698962005256 Phage-related protein [Function unknown]; Region: COG5412 698962005257 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 698962005258 active site 698962005259 DNA binding site [nucleotide binding] 698962005260 Int/Topo IB signature motif; other site 698962005261 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 698962005262 conserved cis-peptide bond; other site 698962005263 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 698962005264 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 698962005265 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 698962005266 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 698962005267 catalytic triad [active] 698962005268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962005269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962005270 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 698962005271 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 698962005272 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 698962005273 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 698962005274 phosphate binding site [ion binding]; other site 698962005275 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 698962005276 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 698962005277 active site 2 [active] 698962005278 active site 1 [active] 698962005279 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 698962005280 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 698962005281 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 698962005282 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 698962005283 putative NAD(P) binding site [chemical binding]; other site 698962005284 active site 698962005285 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 698962005286 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 698962005287 active site 698962005288 Glucitol operon activator protein (GutM); Region: GutM; cl01890 698962005289 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 698962005290 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 698962005291 active site 698962005292 dimerization interface [polypeptide binding]; other site 698962005293 ribonuclease PH; Reviewed; Region: rph; PRK00173 698962005294 Ribonuclease PH; Region: RNase_PH_bact; cd11362 698962005295 hexamer interface [polypeptide binding]; other site 698962005296 active site 698962005297 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 698962005298 glutamate racemase; Provisional; Region: PRK00865 698962005299 Rhomboid family; Region: Rhomboid; cl11446 698962005300 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 698962005301 putative active site pocket [active] 698962005302 cleavage site 698962005303 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 698962005304 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 698962005305 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 698962005306 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 698962005307 active site 698962005308 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 698962005309 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 698962005310 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 698962005311 putative Mg++ binding site [ion binding]; other site 698962005312 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 698962005313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 698962005314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 698962005315 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962005316 active site 698962005317 Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in...; Region: PTH2_family; cl00869 698962005318 dimer interface [polypeptide binding]; other site 698962005319 putative active site [active] 698962005320 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 698962005321 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 698962005322 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 698962005323 phosphoserine phosphatase SerB; Region: serB; TIGR00338 698962005324 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 698962005325 motif II; other site 698962005326 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 698962005327 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 698962005328 D-pathway; other site 698962005329 Putative ubiquinol binding site [chemical binding]; other site 698962005330 Low-spin heme (heme b) binding site [chemical binding]; other site 698962005331 Putative water exit pathway; other site 698962005332 Binuclear center (heme o3/CuB) [ion binding]; other site 698962005333 K-pathway; other site 698962005334 Putative proton exit pathway; other site 698962005335 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 698962005336 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 698962005337 dimer interface [polypeptide binding]; other site 698962005338 putative radical transfer pathway; other site 698962005339 diiron center [ion binding]; other site 698962005340 tyrosyl radical; other site 698962005341 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 698962005342 Ferritin-like domain; Region: Ferritin; pfam00210 698962005343 ferroxidase diiron center [ion binding]; other site 698962005344 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 698962005345 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 698962005346 Class I ribonucleotide reductase; Region: RNR_I; cd01679 698962005347 active site 698962005348 dimer interface [polypeptide binding]; other site 698962005349 catalytic residues [active] 698962005350 effector binding site; other site 698962005351 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 698962005352 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 698962005353 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 698962005354 catalytic residues [active] 698962005355 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 698962005356 active site lid residues [active] 698962005357 substrate binding pocket [chemical binding]; other site 698962005358 catalytic residues [active] 698962005359 substrate-Mg2+ binding site; other site 698962005360 aspartate-rich region 1; other site 698962005361 aspartate-rich region 2; other site 698962005362 phytoene desaturase; Region: crtI_fam; TIGR02734 698962005363 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 698962005364 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 698962005365 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 698962005366 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 698962005367 homodimer interface [polypeptide binding]; other site 698962005368 NAD binding pocket [chemical binding]; other site 698962005369 ATP binding pocket [chemical binding]; other site 698962005370 Mg binding site [ion binding]; other site 698962005371 active-site loop [active] 698962005372 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 698962005373 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 698962005374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 698962005375 HTH-like domain; Region: HTH_21; pfam13276 698962005376 Integrase core domain; Region: rve; pfam00665 698962005377 Integrase core domain; Region: rve_2; pfam13333 698962005378 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 698962005379 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 698962005380 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 698962005381 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 698962005382 Predicted transcriptional regulator [Transcription]; Region: COG2345 698962005383 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 698962005384 Thioredoxin; Region: Thioredoxin_4; cl17273 698962005385 Methylamine utilisation protein MauE; Region: MauE; pfam07291 698962005386 phosphoglucomutase; Validated; Region: PRK07564 698962005387 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 698962005388 active site 698962005389 substrate binding site [chemical binding]; other site 698962005390 metal binding site [ion binding]; metal-binding site 698962005391 CrcB-like protein; Region: CRCB; pfam02537 698962005392 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 698962005393 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 698962005394 FtsX-like permease family; Region: FtsX; pfam02687 698962005395 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 698962005396 FtsX-like permease family; Region: FtsX; pfam02687 698962005397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962005398 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 698962005399 Walker A/P-loop; other site 698962005400 ATP binding site [chemical binding]; other site 698962005401 Q-loop/lid; other site 698962005402 ABC transporter signature motif; other site 698962005403 Walker B; other site 698962005404 D-loop; other site 698962005405 H-loop/switch region; other site 698962005406 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 698962005407 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 698962005408 hinge; other site 698962005409 active site 698962005410 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 698962005411 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 698962005412 GAF domain; Region: GAF_2; pfam13185 698962005413 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962005414 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962005415 DNA binding residues [nucleotide binding] 698962005416 dimerization interface [polypeptide binding]; other site 698962005417 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 698962005418 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 698962005419 dimer interface [polypeptide binding]; other site 698962005420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962005421 catalytic residue [active] 698962005422 serine O-acetyltransferase; Region: cysE; TIGR01172 698962005423 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 698962005424 trimer interface [polypeptide binding]; other site 698962005425 active site 698962005426 substrate binding site [chemical binding]; other site 698962005427 CoA binding site [chemical binding]; other site 698962005428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962005429 Coenzyme A binding pocket [chemical binding]; other site 698962005430 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 698962005431 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 698962005432 putative active site [active] 698962005433 metal binding site [ion binding]; metal-binding site 698962005434 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 698962005435 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 698962005436 Walker A/P-loop; other site 698962005437 ATP binding site [chemical binding]; other site 698962005438 Q-loop/lid; other site 698962005439 ABC transporter signature motif; other site 698962005440 Walker B; other site 698962005441 D-loop; other site 698962005442 H-loop/switch region; other site 698962005443 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 698962005444 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 698962005445 intersubunit interface [polypeptide binding]; other site 698962005446 ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]; Region: FepD; COG0609 698962005447 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 698962005448 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 698962005449 ABC-ATPase subunit interface; other site 698962005450 dimer interface [polypeptide binding]; other site 698962005451 putative PBP binding regions; other site 698962005452 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962005453 Integrase core domain; Region: rve; pfam00665 698962005454 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 698962005455 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 698962005456 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 698962005457 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 698962005458 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 698962005459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005460 Walker A/P-loop; other site 698962005461 ATP binding site [chemical binding]; other site 698962005462 Q-loop/lid; other site 698962005463 ABC transporter signature motif; other site 698962005464 Walker B; other site 698962005465 D-loop; other site 698962005466 H-loop/switch region; other site 698962005467 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 698962005468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005469 Walker A/P-loop; other site 698962005470 ATP binding site [chemical binding]; other site 698962005471 Q-loop/lid; other site 698962005472 ABC transporter signature motif; other site 698962005473 Walker B; other site 698962005474 D-loop; other site 698962005475 H-loop/switch region; other site 698962005476 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 698962005477 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 698962005478 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 698962005479 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 698962005480 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 698962005481 FMN binding site [chemical binding]; other site 698962005482 active site 698962005483 catalytic residues [active] 698962005484 substrate binding site [chemical binding]; other site 698962005485 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 698962005486 PhoU domain; Region: PhoU; pfam01895 698962005487 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 698962005488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962005489 Coenzyme A binding pocket [chemical binding]; other site 698962005490 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 698962005491 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 698962005492 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 698962005493 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 698962005494 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 698962005495 heme-binding site [chemical binding]; other site 698962005496 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 698962005497 substrate binding site [chemical binding]; other site 698962005498 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 698962005499 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 698962005500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962005501 catalytic residue [active] 698962005502 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 698962005503 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 698962005504 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 698962005505 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 698962005506 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 698962005507 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 698962005508 dimerization interface [polypeptide binding]; other site 698962005509 putative ATP binding site [chemical binding]; other site 698962005510 amidophosphoribosyltransferase; Provisional; Region: PRK07847 698962005511 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 698962005512 active site 698962005513 tetramer interface [polypeptide binding]; other site 698962005514 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962005515 active site 698962005516 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 698962005517 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 698962005518 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 698962005519 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 698962005520 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 698962005521 dimer interface [polypeptide binding]; other site 698962005522 putative radical transfer pathway; other site 698962005523 diiron center [ion binding]; other site 698962005524 tyrosyl radical; other site 698962005525 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 698962005526 catalytic residues [active] 698962005527 dimer interface [polypeptide binding]; other site 698962005528 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 698962005529 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 698962005530 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 698962005531 ATP binding site [chemical binding]; other site 698962005532 active site 698962005533 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 698962005534 substrate binding site [chemical binding]; other site 698962005535 adenylosuccinate lyase; Region: purB; TIGR00928 698962005536 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 698962005537 tetramer interface [polypeptide binding]; other site 698962005538 aspartate aminotransferase; Provisional; Region: PRK05764 698962005539 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 698962005540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962005541 homodimer interface [polypeptide binding]; other site 698962005542 catalytic residue [active] 698962005543 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 698962005544 TrkA-N domain; Region: TrkA_N; pfam02254 698962005545 TrkA-C domain; Region: TrkA_C; pfam02080 698962005546 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 698962005547 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 698962005548 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 698962005549 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 698962005550 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 698962005551 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 698962005552 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 698962005553 nucleotide binding site/active site [active] 698962005554 HIT family signature motif; other site 698962005555 catalytic residue [active] 698962005556 PGAP1-like protein; Region: PGAP1; pfam07819 698962005557 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 698962005558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962005559 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 698962005560 dimerization interface [polypeptide binding]; other site 698962005561 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 698962005562 dimer interface [polypeptide binding]; other site 698962005563 phosphorylation site [posttranslational modification] 698962005564 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 698962005565 ATP binding site [chemical binding]; other site 698962005566 Mg2+ binding site [ion binding]; other site 698962005567 G-X-G motif; other site 698962005568 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 698962005569 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 698962005570 active site 698962005571 phosphorylation site [posttranslational modification] 698962005572 intermolecular recognition site; other site 698962005573 dimerization interface [polypeptide binding]; other site 698962005574 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 698962005575 DNA binding site [nucleotide binding] 698962005576 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 698962005577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 698962005578 putative substrate translocation pore; other site 698962005579 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 698962005580 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962005581 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962005582 xanthine permease; Region: pbuX; TIGR03173 698962005583 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 698962005584 pyruvate dehydrogenase; Provisional; Region: PRK06546 698962005585 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 698962005586 PYR/PP interface [polypeptide binding]; other site 698962005587 dimer interface [polypeptide binding]; other site 698962005588 tetramer interface [polypeptide binding]; other site 698962005589 TPP binding site [chemical binding]; other site 698962005590 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 698962005591 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 698962005592 TPP-binding site [chemical binding]; other site 698962005593 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 698962005594 Uncharacterized conserved protein [Function unknown]; Region: COG3610 698962005595 Uncharacterized conserved protein [Function unknown]; Region: COG2966 698962005596 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 698962005597 Uncharacterized conserved protein [Function unknown]; Region: COG3610 698962005598 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 698962005599 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 698962005600 active site 698962005601 homotetramer interface [polypeptide binding]; other site 698962005602 META domain; Region: META; cl01245 698962005603 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 698962005604 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 698962005605 Transcriptional regulators [Transcription]; Region: PurR; COG1609 698962005606 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 698962005607 DNA binding site [nucleotide binding] 698962005608 domain linker motif; other site 698962005609 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 698962005610 putative dimerization interface [polypeptide binding]; other site 698962005611 putative ligand binding site [chemical binding]; other site 698962005612 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 698962005613 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 698962005614 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 698962005615 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 698962005616 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962005617 active site 698962005618 HIGH motif; other site 698962005619 nucleotide binding site [chemical binding]; other site 698962005620 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 698962005621 KMSKS motif; other site 698962005622 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 698962005623 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 698962005624 homotrimer interaction site [polypeptide binding]; other site 698962005625 zinc binding site [ion binding]; other site 698962005626 CDP-binding sites; other site 698962005627 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 698962005628 substrate binding site; other site 698962005629 dimer interface; other site 698962005630 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 698962005631 DNA repair protein RadA; Provisional; Region: PRK11823 698962005632 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 698962005633 Walker A motif; other site 698962005634 ATP binding site [chemical binding]; other site 698962005635 Walker B motif; other site 698962005636 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 698962005637 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 698962005638 active site clefts [active] 698962005639 zinc binding site [ion binding]; other site 698962005640 dimer interface [polypeptide binding]; other site 698962005641 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 698962005642 endonuclease III; Region: ENDO3c; smart00478 698962005643 minor groove reading motif; other site 698962005644 helix-hairpin-helix signature motif; other site 698962005645 substrate binding pocket [chemical binding]; other site 698962005646 active site 698962005647 Uncharacterized conserved protein [Function unknown]; Region: COG2966 698962005648 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 698962005649 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 698962005650 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 698962005651 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 698962005652 Clp amino terminal domain; Region: Clp_N; pfam02861 698962005653 Clp amino terminal domain; Region: Clp_N; pfam02861 698962005654 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 698962005655 Walker A motif; other site 698962005656 ATP binding site [chemical binding]; other site 698962005657 Walker B motif; other site 698962005658 arginine finger; other site 698962005659 UvrB/uvrC motif; Region: UVR; pfam02151 698962005660 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 698962005661 Walker A motif; other site 698962005662 ATP binding site [chemical binding]; other site 698962005663 Walker B motif; other site 698962005664 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 698962005665 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 698962005666 oligomer interface [polypeptide binding]; other site 698962005667 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 698962005668 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 698962005669 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 698962005670 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 698962005671 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 698962005672 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 698962005673 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 698962005674 active site 698962005675 catalytic motif [active] 698962005676 Zn binding site [ion binding]; other site 698962005677 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 698962005678 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 698962005679 Nucleoside recognition; Region: Gate; pfam07670 698962005680 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 698962005681 Transposase; Region: DDE_Tnp_ISL3; pfam01610 698962005682 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 698962005683 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 698962005684 dimer interface [polypeptide binding]; other site 698962005685 putative anticodon binding site; other site 698962005686 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 698962005687 motif 1; other site 698962005688 dimer interface [polypeptide binding]; other site 698962005689 active site 698962005690 motif 2; other site 698962005691 motif 3; other site 698962005692 YcaO-like family; Region: YcaO; pfam02624 698962005693 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 698962005694 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 698962005695 NADPH bind site [chemical binding]; other site 698962005696 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 698962005697 dimer interface [polypeptide binding]; other site 698962005698 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 698962005699 SpaB C-terminal domain; Region: SpaB_C; pfam14028 698962005700 YcaO-like family; Region: YcaO; pfam02624 698962005701 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 698962005702 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962005703 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 698962005704 Walker A/P-loop; other site 698962005705 ATP binding site [chemical binding]; other site 698962005706 Q-loop/lid; other site 698962005707 ABC transporter signature motif; other site 698962005708 Walker B; other site 698962005709 D-loop; other site 698962005710 H-loop/switch region; other site 698962005711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962005712 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962005713 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 698962005714 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 698962005715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 698962005716 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 698962005717 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 698962005718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962005719 active site 698962005720 KMSKS motif; other site 698962005721 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 698962005722 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 698962005723 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 698962005724 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 698962005725 catalytic center binding site [active] 698962005726 ATP binding site [chemical binding]; other site 698962005727 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 698962005728 homooctamer interface [polypeptide binding]; other site 698962005729 active site 698962005730 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 698962005731 dihydropteroate synthase; Region: DHPS; TIGR01496 698962005732 substrate binding pocket [chemical binding]; other site 698962005733 dimer interface [polypeptide binding]; other site 698962005734 inhibitor binding site; inhibition site 698962005735 Protein of unknown function, DUF393; Region: DUF393; pfam04134 698962005736 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 698962005737 homodecamer interface [polypeptide binding]; other site 698962005738 GTP cyclohydrolase I; Provisional; Region: PLN03044 698962005739 active site 698962005740 putative catalytic site residues [active] 698962005741 zinc binding site [ion binding]; other site 698962005742 GTP-CH-I/GFRP interaction surface; other site 698962005743 FtsH Extracellular; Region: FtsH_ext; pfam06480 698962005744 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 698962005745 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 698962005746 Walker A motif; other site 698962005747 ATP binding site [chemical binding]; other site 698962005748 Walker B motif; other site 698962005749 arginine finger; other site 698962005750 Peptidase family M41; Region: Peptidase_M41; pfam01434 698962005751 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962005752 active site 698962005753 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 698962005754 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 698962005755 Ligand Binding Site [chemical binding]; other site 698962005756 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 698962005757 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 698962005758 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 698962005759 dimer interface [polypeptide binding]; other site 698962005760 substrate binding site [chemical binding]; other site 698962005761 metal binding sites [ion binding]; metal-binding site 698962005762 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 698962005763 active site residue [active] 698962005764 Transcriptional regulators [Transcription]; Region: MarR; COG1846 698962005765 MarR family; Region: MarR_2; cl17246 698962005766 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962005767 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 698962005768 acyl-activating enzyme (AAE) consensus motif; other site 698962005769 AMP binding site [chemical binding]; other site 698962005770 active site 698962005771 CoA binding site [chemical binding]; other site 698962005772 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962005773 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 698962005774 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962005775 putative trimer interface [polypeptide binding]; other site 698962005776 putative CoA binding site [chemical binding]; other site 698962005777 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962005778 putative trimer interface [polypeptide binding]; other site 698962005779 putative CoA binding site [chemical binding]; other site 698962005780 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 698962005781 putative trimer interface [polypeptide binding]; other site 698962005782 putative CoA binding site [chemical binding]; other site 698962005783 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 698962005784 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 698962005785 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 698962005786 active site 698962005787 catalytic triad [active] 698962005788 oxyanion hole [active] 698962005789 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 698962005790 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 698962005791 ring oligomerisation interface [polypeptide binding]; other site 698962005792 ATP/Mg binding site [chemical binding]; other site 698962005793 stacking interactions; other site 698962005794 hinge regions; other site 698962005795 potential frameshift: common BLAST hit: gi|336326698|ref|YP_004606664.1| transposase for insertion sequence element 698962005796 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962005797 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 698962005798 potential frameshift: common BLAST hit: gi|336326698|ref|YP_004606664.1| transposase for insertion sequence element 698962005799 potential frameshift: common BLAST hit: gi|336326698|ref|YP_004606664.1| transposase for insertion sequence element 698962005800 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962005801 MULE transposase domain; Region: MULE; pfam10551 698962005802 Transposase, Mutator family; Region: Transposase_mut; pfam00872 698962005803 potential frameshift: common BLAST hit: gi|38234640|ref|NP_940407.1| transposase for insertion element 698962005804 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962005805 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962005806 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962005807 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962005808 Transposase; Region: DEDD_Tnp_IS110; pfam01548 698962005809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 698962005810 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 698962005811 potential frameshift: common BLAST hit: gi|38234527|ref|NP_940294.1| transposase 698962005812 HTH-like domain; Region: HTH_21; pfam13276 698962005813 Integrase core domain; Region: rve_3; cl15866 698962005814 potential frameshift: common BLAST hit: gi|227833069|ref|YP_002834776.1| transposase 698962005815 MULE transposase domain; Region: MULE; pfam10551 698962005816 hypothetical protein; Provisional; Region: PRK07907 698962005817 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 698962005818 active site 698962005819 metal binding site [ion binding]; metal-binding site 698962005820 dimer interface [polypeptide binding]; other site 698962005821 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 698962005822 carboxylate-amine ligase; Provisional; Region: PRK13517 698962005823 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 698962005824 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 698962005825 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 698962005826 active site 698962005827 catalytic residues [active] 698962005828 metal binding site [ion binding]; metal-binding site 698962005829 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 698962005830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 698962005831 Coenzyme A binding pocket [chemical binding]; other site 698962005832 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 698962005833 putative catalytic site [active] 698962005834 putative metal binding site [ion binding]; other site 698962005835 putative phosphate binding site [ion binding]; other site 698962005836 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 698962005837 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 698962005838 putative active site [active] 698962005839 catalytic site [active] 698962005840 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 698962005841 putative active site [active] 698962005842 catalytic site [active] 698962005843 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 698962005844 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962005845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005846 Walker A/P-loop; other site 698962005847 ATP binding site [chemical binding]; other site 698962005848 Q-loop/lid; other site 698962005849 ABC transporter signature motif; other site 698962005850 Walker B; other site 698962005851 D-loop; other site 698962005852 H-loop/switch region; other site 698962005853 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 698962005854 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 698962005855 substrate binding pocket [chemical binding]; other site 698962005856 membrane-bound complex binding site; other site 698962005857 hinge residues; other site 698962005858 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 698962005859 Catalytic domain of Protein Kinases; Region: PKc; cd00180 698962005860 active site 698962005861 ATP binding site [chemical binding]; other site 698962005862 substrate binding site [chemical binding]; other site 698962005863 activation loop (A-loop); other site 698962005864 propionate/acetate kinase; Provisional; Region: PRK12379 698962005865 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 698962005866 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 698962005867 ferredoxin-NADP+ reductase; Region: PLN02852 698962005868 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 698962005869 ATP-grasp domain; Region: ATP-grasp_4; cl17255 698962005870 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 698962005871 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962005872 active site 698962005873 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 698962005874 putative active site [active] 698962005875 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 698962005876 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 698962005877 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 698962005878 GDP-binding site [chemical binding]; other site 698962005879 ACT binding site; other site 698962005880 IMP binding site; other site 698962005881 Predicted membrane protein [Function unknown]; Region: COG4129 698962005882 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 698962005883 chromosome segregation protein; Provisional; Region: PRK03918 698962005884 Predicted membrane protein [Function unknown]; Region: COG4129 698962005885 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 698962005886 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 698962005887 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 698962005888 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 698962005889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 698962005890 Transposase; Region: HTH_Tnp_1; pfam01527 698962005891 HTH-like domain; Region: HTH_21; pfam13276 698962005892 Integrase core domain; Region: rve; pfam00665 698962005893 Integrase core domain; Region: rve_3; cl15866 698962005894 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 698962005895 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 698962005896 Walker A/P-loop; other site 698962005897 ATP binding site [chemical binding]; other site 698962005898 Q-loop/lid; other site 698962005899 ABC transporter signature motif; other site 698962005900 Walker B; other site 698962005901 D-loop; other site 698962005902 H-loop/switch region; other site 698962005903 potential frameshift: common BLAST hit: gi|38234527|ref|NP_940294.1| transposase 698962005904 Integrase core domain; Region: rve_3; cl15866 698962005905 HTH-like domain; Region: HTH_21; pfam13276 698962005906 potential frameshift: common BLAST hit: gi|297571109|ref|YP_003696883.1| terminase 698962005907 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 698962005908 potential frameshift: common BLAST hit: gi|297571109|ref|YP_003696883.1| terminase 698962005909 Phage Terminase; Region: Terminase_1; pfam03354 698962005910 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 698962005911 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962005912 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962005913 Integrase core domain; Region: rve; pfam00665 698962005914 HTH-like domain; Region: HTH_21; pfam13276 698962005915 Integrase core domain; Region: rve; pfam00665 698962005916 Transposase; Region: HTH_Tnp_1; cl17663 698962005917 Integrase core domain; Region: rve; pfam00665 698962005918 Integrase core domain; Region: rve_3; pfam13683 698962005919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 698962005920 NADH(P)-binding; Region: NAD_binding_10; pfam13460 698962005921 NAD(P) binding site [chemical binding]; other site 698962005922 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 698962005923 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 698962005924 Condensation domain; Region: Condensation; pfam00668 698962005925 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 698962005926 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962005927 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 698962005928 acyl-activating enzyme (AAE) consensus motif; other site 698962005929 AMP binding site [chemical binding]; other site 698962005930 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 698962005931 S-adenosylmethionine binding site [chemical binding]; other site 698962005932 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962005933 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962005934 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 698962005935 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962005936 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 698962005937 acyl-activating enzyme (AAE) consensus motif; other site 698962005938 AMP binding site [chemical binding]; other site 698962005939 active site 698962005940 CoA binding site [chemical binding]; other site 698962005941 Phosphopantetheine attachment site; Region: PP-binding; cl09936 698962005942 Condensation domain; Region: Condensation; pfam00668 698962005943 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 698962005944 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962005945 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 698962005946 acyl-activating enzyme (AAE) consensus motif; other site 698962005947 AMP binding site [chemical binding]; other site 698962005948 Methyltransferase domain; Region: Methyltransf_23; pfam13489 698962005949 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 698962005950 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962005951 Condensation domain; Region: Condensation; pfam00668 698962005952 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 698962005953 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962005954 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 698962005955 acyl-activating enzyme (AAE) consensus motif; other site 698962005956 AMP binding site [chemical binding]; other site 698962005957 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962005958 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 698962005959 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 698962005960 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 698962005961 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 698962005962 Walker A/P-loop; other site 698962005963 ATP binding site [chemical binding]; other site 698962005964 Q-loop/lid; other site 698962005965 ABC transporter signature motif; other site 698962005966 Walker B; other site 698962005967 D-loop; other site 698962005968 H-loop/switch region; other site 698962005969 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 698962005970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005971 Walker A/P-loop; other site 698962005972 ATP binding site [chemical binding]; other site 698962005973 Q-loop/lid; other site 698962005974 ABC transporter signature motif; other site 698962005975 Walker B; other site 698962005976 D-loop; other site 698962005977 H-loop/switch region; other site 698962005978 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962005979 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005980 Walker A/P-loop; other site 698962005981 ATP binding site [chemical binding]; other site 698962005982 Q-loop/lid; other site 698962005983 ABC transporter signature motif; other site 698962005984 Walker B; other site 698962005985 D-loop; other site 698962005986 H-loop/switch region; other site 698962005987 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962005988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962005989 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962005990 Walker A/P-loop; other site 698962005991 ATP binding site [chemical binding]; other site 698962005992 Q-loop/lid; other site 698962005993 ABC transporter signature motif; other site 698962005994 Walker B; other site 698962005995 D-loop; other site 698962005996 H-loop/switch region; other site 698962005997 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 698962005998 Anticodon binding domain of tRNAs; Region: HGTP_anticodon2; pfam12745 698962005999 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 698962006000 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 698962006001 homodimer interface [polypeptide binding]; other site 698962006002 active site 698962006003 TDP-binding site; other site 698962006004 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 698962006005 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 698962006006 active site 698962006007 substrate binding site [chemical binding]; other site 698962006008 trimer interface [polypeptide binding]; other site 698962006009 CoA binding site [chemical binding]; other site 698962006010 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 698962006011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006012 Walker A/P-loop; other site 698962006013 ATP binding site [chemical binding]; other site 698962006014 Q-loop/lid; other site 698962006015 ABC transporter signature motif; other site 698962006016 Walker B; other site 698962006017 D-loop; other site 698962006018 H-loop/switch region; other site 698962006019 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 698962006020 ABC-2 type transporter; Region: ABC2_membrane; cl17235 698962006021 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 698962006022 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 698962006023 potential frameshift: common BLAST hit: gi|172041139|ref|YP_001800853.1| transposase for insertion sequence 698962006024 TQXA domain; Region: TQXA_dom; TIGR03934 698962006025 putative transposase OrfB; Reviewed; Region: PHA02517 698962006026 HTH-like domain; Region: HTH_21; pfam13276 698962006027 Integrase core domain; Region: rve; pfam00665 698962006028 Integrase core domain; Region: rve_2; pfam13333 698962006029 Helix-turn-helix domain; Region: HTH_28; pfam13518 698962006030 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 698962006031 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 698962006032 active site 698962006033 intersubunit interface [polypeptide binding]; other site 698962006034 zinc binding site [ion binding]; other site 698962006035 Na+ binding site [ion binding]; other site 698962006036 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 698962006037 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 698962006038 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 698962006039 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 698962006040 active site 698962006041 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 698962006042 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 698962006043 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 698962006044 active site residue [active] 698962006045 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 698962006046 active site residue [active] 698962006047 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 698962006048 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 698962006049 Clp amino terminal domain; Region: Clp_N; pfam02861 698962006050 Clp amino terminal domain; Region: Clp_N; pfam02861 698962006051 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 698962006052 Walker A motif; other site 698962006053 ATP binding site [chemical binding]; other site 698962006054 Walker B motif; other site 698962006055 arginine finger; other site 698962006056 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 698962006057 Walker A motif; other site 698962006058 ATP binding site [chemical binding]; other site 698962006059 Walker B motif; other site 698962006060 arginine finger; other site 698962006061 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 698962006062 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 698962006063 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 698962006064 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 698962006065 Walker A/P-loop; other site 698962006066 ATP binding site [chemical binding]; other site 698962006067 Q-loop/lid; other site 698962006068 ABC transporter signature motif; other site 698962006069 Walker B; other site 698962006070 D-loop; other site 698962006071 H-loop/switch region; other site 698962006072 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 698962006073 EamA-like transporter family; Region: EamA; pfam00892 698962006074 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 698962006075 EamA-like transporter family; Region: EamA; pfam00892 698962006076 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 698962006077 FAD binding pocket [chemical binding]; other site 698962006078 FAD binding motif [chemical binding]; other site 698962006079 phosphate binding motif [ion binding]; other site 698962006080 beta-alpha-beta structure motif; other site 698962006081 NAD binding pocket [chemical binding]; other site 698962006082 Predicted amidohydrolase [General function prediction only]; Region: COG0388 698962006083 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 698962006084 putative active site [active] 698962006085 catalytic triad [active] 698962006086 putative dimer interface [polypeptide binding]; other site 698962006087 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 698962006088 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 698962006089 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 698962006090 NAD binding site [chemical binding]; other site 698962006091 substrate binding site [chemical binding]; other site 698962006092 catalytic Zn binding site [ion binding]; other site 698962006093 tetramer interface [polypeptide binding]; other site 698962006094 structural Zn binding site [ion binding]; other site 698962006095 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 698962006096 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 698962006097 NAD(P) binding site [chemical binding]; other site 698962006098 catalytic residues [active] 698962006099 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 698962006100 EamA-like transporter family; Region: EamA; pfam00892 698962006101 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 698962006102 EamA-like transporter family; Region: EamA; pfam00892 698962006103 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 698962006104 FAD binding pocket [chemical binding]; other site 698962006105 FAD binding motif [chemical binding]; other site 698962006106 phosphate binding motif [ion binding]; other site 698962006107 beta-alpha-beta structure motif; other site 698962006108 NAD binding pocket [chemical binding]; other site 698962006109 Predicted amidohydrolase [General function prediction only]; Region: COG0388 698962006110 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 698962006111 putative active site [active] 698962006112 catalytic triad [active] 698962006113 putative dimer interface [polypeptide binding]; other site 698962006114 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 698962006115 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 698962006116 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 698962006117 NAD binding site [chemical binding]; other site 698962006118 substrate binding site [chemical binding]; other site 698962006119 catalytic Zn binding site [ion binding]; other site 698962006120 tetramer interface [polypeptide binding]; other site 698962006121 structural Zn binding site [ion binding]; other site 698962006122 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 698962006123 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 698962006124 NAD(P) binding site [chemical binding]; other site 698962006125 catalytic residues [active] 698962006126 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 698962006127 DNA binding residues [nucleotide binding] 698962006128 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 698962006129 putative dimer interface [polypeptide binding]; other site 698962006130 chaperone protein DnaJ; Provisional; Region: PRK14279 698962006131 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 698962006132 HSP70 interaction site [polypeptide binding]; other site 698962006133 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 698962006134 Zn binding sites [ion binding]; other site 698962006135 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 698962006136 dimer interface [polypeptide binding]; other site 698962006137 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 698962006138 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 698962006139 dimer interface [polypeptide binding]; other site 698962006140 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 698962006141 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 698962006142 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 698962006143 nucleotide binding site [chemical binding]; other site 698962006144 NEF interaction site [polypeptide binding]; other site 698962006145 SBD interface [polypeptide binding]; other site 698962006146 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 698962006147 PAS domain; Region: PAS_9; pfam13426 698962006148 putative active site [active] 698962006149 heme pocket [chemical binding]; other site 698962006150 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 698962006151 Domain of unknown function DUF20; Region: UPF0118; pfam01594 698962006152 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962006153 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962006154 Walker A/P-loop; other site 698962006155 ATP binding site [chemical binding]; other site 698962006156 Q-loop/lid; other site 698962006157 ABC transporter signature motif; other site 698962006158 Walker B; other site 698962006159 D-loop; other site 698962006160 H-loop/switch region; other site 698962006161 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 698962006162 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 698962006163 dimer interface [polypeptide binding]; other site 698962006164 conserved gate region; other site 698962006165 putative PBP binding loops; other site 698962006166 ABC-ATPase subunit interface; other site 698962006167 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962006168 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 698962006169 Walker A/P-loop; other site 698962006170 ATP binding site [chemical binding]; other site 698962006171 Q-loop/lid; other site 698962006172 ABC transporter signature motif; other site 698962006173 Walker B; other site 698962006174 D-loop; other site 698962006175 H-loop/switch region; other site 698962006176 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 698962006177 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962006178 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 698962006179 dimer interface [polypeptide binding]; other site 698962006180 conserved gate region; other site 698962006181 putative PBP binding loops; other site 698962006182 ABC-ATPase subunit interface; other site 698962006183 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 698962006184 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 698962006185 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 698962006186 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 698962006187 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 698962006188 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 698962006189 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 698962006190 dimerization interface [polypeptide binding]; other site 698962006191 ATP binding site [chemical binding]; other site 698962006192 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 698962006193 dimerization interface [polypeptide binding]; other site 698962006194 ATP binding site [chemical binding]; other site 698962006195 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 698962006196 putative active site [active] 698962006197 catalytic triad [active] 698962006198 nucleosidase; Provisional; Region: PRK05634 698962006199 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 698962006200 ferredoxin-NADP+ reductase; Region: PLN02852 698962006201 Permease; Region: Permease; cl00510 698962006202 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 698962006203 4Fe-4S binding domain; Region: Fer4; cl02805 698962006204 Cysteine-rich domain; Region: CCG; pfam02754 698962006205 Cysteine-rich domain; Region: CCG; pfam02754 698962006206 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 698962006207 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 698962006208 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 698962006209 putative NAD(P) binding site [chemical binding]; other site 698962006210 catalytic Zn binding site [ion binding]; other site 698962006211 aminotransferase AlaT; Validated; Region: PRK09265 698962006212 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 698962006213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962006214 homodimer interface [polypeptide binding]; other site 698962006215 catalytic residue [active] 698962006216 YibE/F-like protein; Region: YibE_F; pfam07907 698962006217 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 698962006218 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 698962006219 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 698962006220 dimer interface [polypeptide binding]; other site 698962006221 putative anticodon binding site; other site 698962006222 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 698962006223 motif 1; other site 698962006224 dimer interface [polypeptide binding]; other site 698962006225 active site 698962006226 motif 2; other site 698962006227 motif 3; other site 698962006228 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 698962006229 Protein of unknown function (DUF998); Region: DUF998; pfam06197 698962006230 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 698962006231 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 698962006232 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 698962006233 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 698962006234 trimer interface [polypeptide binding]; other site 698962006235 active site 698962006236 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962006237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006238 Walker A/P-loop; other site 698962006239 ATP binding site [chemical binding]; other site 698962006240 Q-loop/lid; other site 698962006241 ABC transporter signature motif; other site 698962006242 Walker B; other site 698962006243 D-loop; other site 698962006244 H-loop/switch region; other site 698962006245 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 698962006246 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 698962006247 active site 698962006248 potential frameshift: common BLAST hit: gi|38234699|ref|NP_940466.1| DNA-binding bacteriophage protein 698962006249 Prophage antirepressor [Transcription]; Region: COG3617 698962006250 BRO family, N-terminal domain; Region: Bro-N; smart01040 698962006251 Abi-like protein; Region: Abi_2; cl01988 698962006252 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 698962006253 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962006254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 698962006255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006256 Walker A/P-loop; other site 698962006257 ATP binding site [chemical binding]; other site 698962006258 Q-loop/lid; other site 698962006259 ABC transporter signature motif; other site 698962006260 Walker B; other site 698962006261 D-loop; other site 698962006262 H-loop/switch region; other site 698962006263 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 698962006264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006265 Walker A/P-loop; other site 698962006266 ATP binding site [chemical binding]; other site 698962006267 Q-loop/lid; other site 698962006268 ABC transporter signature motif; other site 698962006269 Walker B; other site 698962006270 D-loop; other site 698962006271 H-loop/switch region; other site 698962006272 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 698962006273 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 698962006274 active site 698962006275 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 698962006276 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962006277 Condensation domain; Region: Condensation; pfam00668 698962006278 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 698962006279 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962006280 Condensation domain; Region: Condensation; pfam00668 698962006281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 698962006282 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962006283 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962006284 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 698962006285 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962006286 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 698962006287 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 698962006288 acyl-activating enzyme (AAE) consensus motif; other site 698962006289 AMP binding site [chemical binding]; other site 698962006290 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 698962006291 Condensation domain; Region: Condensation; pfam00668 698962006292 Nonribosomal peptide synthase; Region: NRPS; pfam08415 698962006293 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 698962006294 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_17; cd08503 698962006295 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 698962006296 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 698962006297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 698962006298 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 698962006299 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 698962006300 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 698962006301 Walker A/P-loop; other site 698962006302 ATP binding site [chemical binding]; other site 698962006303 Q-loop/lid; other site 698962006304 ABC transporter signature motif; other site 698962006305 Walker B; other site 698962006306 D-loop; other site 698962006307 H-loop/switch region; other site 698962006308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006309 Walker A/P-loop; other site 698962006310 ATP binding site [chemical binding]; other site 698962006311 Q-loop/lid; other site 698962006312 ABC transporter signature motif; other site 698962006313 Walker B; other site 698962006314 D-loop; other site 698962006315 H-loop/switch region; other site 698962006316 metabolite-proton symporter; Region: 2A0106; TIGR00883 698962006317 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 698962006318 putative substrate translocation pore; other site 698962006319 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 698962006320 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 698962006321 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 698962006322 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 698962006323 putative substrate translocation pore; other site 698962006324 YwiC-like protein; Region: YwiC; pfam14256 698962006325 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 698962006326 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 698962006327 VanW like protein; Region: VanW; pfam04294 698962006328 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 698962006329 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 698962006330 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 698962006331 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 698962006332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 698962006333 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 698962006334 Methyltransferase domain; Region: Methyltransf_31; pfam13847 698962006335 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 698962006336 S-adenosylmethionine binding site [chemical binding]; other site 698962006337 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 698962006338 active site 698962006339 substrate-binding site [chemical binding]; other site 698962006340 metal-binding site [ion binding] 698962006341 GTP binding site [chemical binding]; other site 698962006342 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 698962006343 S-adenosylmethionine binding site [chemical binding]; other site 698962006344 LabA_like proteins; Region: LabA_like; cd06167 698962006345 putative metal binding site [ion binding]; other site 698962006346 MMPL family; Region: MMPL; pfam03176 698962006347 Protein of unknown function (DUF496); Region: DUF496; cl09955 698962006348 MMPL family; Region: MMPL; pfam03176 698962006349 Predicted integral membrane protein [Function unknown]; Region: COG0392 698962006350 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 698962006351 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 698962006352 TQXA domain; Region: TQXA_dom; TIGR03934 698962006353 potential frameshift: common BLAST hit: gi|337291728|ref|YP_004630749.1| protease CP40 698962006354 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 698962006355 active site 698962006356 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 698962006357 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 698962006358 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 698962006359 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 698962006360 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 698962006361 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 698962006362 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 698962006363 active site 698962006364 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 698962006365 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 698962006366 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 698962006367 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 698962006368 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 698962006369 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 698962006370 acyl-activating enzyme (AAE) consensus motif; other site 698962006371 active site 698962006372 Cutinase; Region: Cutinase; pfam01083 698962006373 Putative esterase; Region: Esterase; pfam00756 698962006374 S-formylglutathione hydrolase; Region: PLN02442 698962006375 LGFP repeat; Region: LGFP; pfam08310 698962006376 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 698962006377 LGFP repeat; Region: LGFP; pfam08310 698962006378 LGFP repeat; Region: LGFP; pfam08310 698962006379 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 698962006380 Predicted esterase [General function prediction only]; Region: COG0627 698962006381 S-formylglutathione hydrolase; Region: PLN02442 698962006382 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 698962006383 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 698962006384 UbiA prenyltransferase family; Region: UbiA; pfam01040 698962006385 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 698962006386 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 698962006387 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 698962006388 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 698962006389 active site 698962006390 BCCT family transporter; Region: BCCT; cl00569 698962006391 choline dehydrogenase; Validated; Region: PRK02106 698962006392 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 698962006393 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 698962006394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 698962006395 UDP-galactopyranose mutase; Region: GLF; pfam03275 698962006396 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 698962006397 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 698962006398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006399 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962006400 ABC transporter signature motif; other site 698962006401 Walker B; other site 698962006402 D-loop; other site 698962006403 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 698962006404 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 698962006405 Resolvase, N terminal domain; Region: Resolvase; pfam00239 698962006406 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 698962006407 DNA-binding interface [nucleotide binding]; DNA binding site 698962006408 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 698962006409 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 698962006410 active site 698962006411 catalytic tetrad [active] 698962006412 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 698962006413 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 698962006414 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 698962006415 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 698962006416 active site 698962006417 catalytic tetrad [active] 698962006418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 698962006419 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 698962006420 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 698962006421 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 698962006422 Helix-turn-helix domain; Region: HTH_38; pfam13936 698962006423 Integrase core domain; Region: rve; pfam00665 698962006424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006425 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 698962006426 Q-loop/lid; other site 698962006427 ABC transporter signature motif; other site 698962006428 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 698962006429 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 698962006430 putative substrate binding site [chemical binding]; other site 698962006431 putative ATP binding site [chemical binding]; other site 698962006432 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 698962006433 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 698962006434 substrate binding [chemical binding]; other site 698962006435 active site 698962006436 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 698962006437 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 698962006438 active site turn [active] 698962006439 phosphorylation site [posttranslational modification] 698962006440 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 698962006441 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 698962006442 HPr interaction site; other site 698962006443 glycerol kinase (GK) interaction site [polypeptide binding]; other site 698962006444 active site 698962006445 phosphorylation site [posttranslational modification] 698962006446 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 698962006447 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 698962006448 amidase catalytic site [active] 698962006449 Zn binding residues [ion binding]; other site 698962006450 substrate binding site [chemical binding]; other site 698962006451 LGFP repeat; Region: LGFP; pfam08310 698962006452 Predicted ATPases [General function prediction only]; Region: COG1106 698962006453 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006454 Q-loop/lid; other site 698962006455 ABC transporter signature motif; other site 698962006456 Walker B; other site 698962006457 D-loop; other site 698962006458 H-loop/switch region; other site 698962006459 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 698962006460 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 698962006461 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 698962006462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 698962006463 HTH-like domain; Region: HTH_21; pfam13276 698962006464 Integrase core domain; Region: rve; pfam00665 698962006465 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 698962006466 sequence-specific DNA binding site [nucleotide binding]; other site 698962006467 salt bridge; other site 698962006468 glycerol kinase; Provisional; Region: glpK; PRK00047 698962006469 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 698962006470 N- and C-terminal domain interface [polypeptide binding]; other site 698962006471 active site 698962006472 MgATP binding site [chemical binding]; other site 698962006473 catalytic site [active] 698962006474 metal binding site [ion binding]; metal-binding site 698962006475 putative homotetramer interface [polypeptide binding]; other site 698962006476 glycerol binding site [chemical binding]; other site 698962006477 homodimer interface [polypeptide binding]; other site 698962006478 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 698962006479 amphipathic channel; other site 698962006480 Asn-Pro-Ala signature motifs; other site 698962006481 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 698962006482 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 698962006483 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 698962006484 putative acyl-acceptor binding pocket; other site 698962006485 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 698962006486 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 698962006487 active site 698962006488 motif I; other site 698962006489 motif II; other site 698962006490 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 698962006491 seryl-tRNA synthetase; Provisional; Region: PRK05431 698962006492 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 698962006493 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 698962006494 dimer interface [polypeptide binding]; other site 698962006495 active site 698962006496 motif 1; other site 698962006497 motif 2; other site 698962006498 motif 3; other site 698962006499 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 698962006500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962006501 DNA-binding site [nucleotide binding]; DNA binding site 698962006502 UTRA domain; Region: UTRA; pfam07702 698962006503 Septum formation; Region: Septum_form; pfam13845 698962006504 Septum formation; Region: Septum_form; pfam13845 698962006505 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 698962006506 AAA domain; Region: AAA_14; pfam13173 698962006507 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 698962006508 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 698962006509 catalytic core [active] 698962006510 prephenate dehydratase; Provisional; Region: PRK11898 698962006511 Prephenate dehydratase; Region: PDT; pfam00800 698962006512 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 698962006513 putative L-Phe binding site [chemical binding]; other site 698962006514 Amidase; Region: Amidase; cl11426 698962006515 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 698962006516 CAAX protease self-immunity; Region: Abi; pfam02517 698962006517 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 698962006518 Transcriptional regulator [Transcription]; Region: LytR; COG1316 698962006519 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 698962006520 amino acid carrier protein; Region: agcS; TIGR00835 698962006521 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 698962006522 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 698962006523 catalytic triad [active] 698962006524 catalytic triad [active] 698962006525 oxyanion hole [active] 698962006526 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 698962006527 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 698962006528 putative active site [active] 698962006529 catalytic site [active] 698962006530 putative metal binding site [ion binding]; other site 698962006531 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 698962006532 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 698962006533 tetramer (dimer of dimers) interface [polypeptide binding]; other site 698962006534 NAD binding site [chemical binding]; other site 698962006535 dimer interface [polypeptide binding]; other site 698962006536 substrate binding site [chemical binding]; other site 698962006537 quinolinate synthetase; Provisional; Region: PRK09375 698962006538 L-aspartate oxidase; Provisional; Region: PRK06175 698962006539 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 698962006540 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 698962006541 dimerization interface [polypeptide binding]; other site 698962006542 active site 698962006543 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 698962006544 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 698962006545 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 698962006546 Predicted flavoprotein [General function prediction only]; Region: COG0431 698962006547 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 698962006548 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 698962006549 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 698962006550 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 698962006551 Lsr2; Region: Lsr2; pfam11774 698962006552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962006553 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 698962006554 active site 698962006555 phosphorylation site [posttranslational modification] 698962006556 intermolecular recognition site; other site 698962006557 dimerization interface [polypeptide binding]; other site 698962006558 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962006559 DNA binding residues [nucleotide binding] 698962006560 dimerization interface [polypeptide binding]; other site 698962006561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 698962006562 Histidine kinase; Region: HisKA_3; pfam07730 698962006563 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 698962006564 ATP binding site [chemical binding]; other site 698962006565 Mg2+ binding site [ion binding]; other site 698962006566 G-X-G motif; other site 698962006567 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 698962006568 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 698962006569 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 698962006570 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 698962006571 active site 698962006572 catalytic site [active] 698962006573 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 698962006574 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 698962006575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 698962006576 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 698962006577 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 698962006578 Ligand Binding Site [chemical binding]; other site 698962006579 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 698962006580 Ligand Binding Site [chemical binding]; other site 698962006581 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 698962006582 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 698962006583 probable active site [active] 698962006584 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 698962006585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006586 Walker A/P-loop; other site 698962006587 ATP binding site [chemical binding]; other site 698962006588 Q-loop/lid; other site 698962006589 ABC transporter signature motif; other site 698962006590 Walker B; other site 698962006591 D-loop; other site 698962006592 H-loop/switch region; other site 698962006593 Predicted transcriptional regulators [Transcription]; Region: COG1725 698962006594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 698962006595 DNA-binding site [nucleotide binding]; DNA binding site 698962006596 LabA_like proteins; Region: LabA_like; cd06167 698962006597 putative metal binding site [ion binding]; other site 698962006598 Uncharacterized conserved protein [Function unknown]; Region: COG1432 698962006599 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 698962006600 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 698962006601 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 698962006602 catalytic residues [active] 698962006603 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 698962006604 metal-binding site [ion binding] 698962006605 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 698962006606 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 698962006607 metal-binding site [ion binding] 698962006608 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 698962006609 Soluble P-type ATPase [General function prediction only]; Region: COG4087 698962006610 benzoate transport; Region: 2A0115; TIGR00895 698962006611 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 698962006612 putative substrate translocation pore; other site 698962006613 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 698962006614 replicative DNA helicase; Provisional; Region: PRK05636 698962006615 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 698962006616 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 698962006617 Walker A motif; other site 698962006618 ATP binding site [chemical binding]; other site 698962006619 Walker B motif; other site 698962006620 DNA binding loops [nucleotide binding] 698962006621 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 698962006622 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 698962006623 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 698962006624 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 698962006625 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 698962006626 dimer interface [polypeptide binding]; other site 698962006627 ssDNA binding site [nucleotide binding]; other site 698962006628 tetramer (dimer of dimers) interface [polypeptide binding]; other site 698962006629 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 698962006630 Predicted integral membrane protein [Function unknown]; Region: COG5650 698962006631 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 698962006632 Transglycosylase; Region: Transgly; pfam00912 698962006633 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 698962006634 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 698962006635 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 698962006636 Ligand Binding Site [chemical binding]; other site 698962006637 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 698962006638 Ligand Binding Site [chemical binding]; other site 698962006639 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 698962006640 classical (c) SDRs; Region: SDR_c; cd05233 698962006641 NAD(P) binding site [chemical binding]; other site 698962006642 active site 698962006643 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 698962006644 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 698962006645 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 698962006646 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 698962006647 active site residue [active] 698962006648 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 698962006649 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 698962006650 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 698962006651 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 698962006652 dimerization interface [polypeptide binding]; other site 698962006653 DPS ferroxidase diiron center [ion binding]; other site 698962006654 ion pore; other site 698962006655 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 698962006656 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 698962006657 putative DNA binding site [nucleotide binding]; other site 698962006658 catalytic residue [active] 698962006659 putative H2TH interface [polypeptide binding]; other site 698962006660 putative catalytic residues [active] 698962006661 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 698962006662 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 698962006663 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 698962006664 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 698962006665 putative substrate binding site [chemical binding]; other site 698962006666 putative ATP binding site [chemical binding]; other site 698962006667 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 698962006668 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 698962006669 active site 698962006670 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 698962006671 AAA domain; Region: AAA_31; pfam13614 698962006672 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 698962006673 P-loop; other site 698962006674 Magnesium ion binding site [ion binding]; other site 698962006675 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 698962006676 Magnesium ion binding site [ion binding]; other site 698962006677 Divergent AAA domain; Region: AAA_4; pfam04326 698962006678 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 698962006679 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 698962006680 Divergent AAA domain; Region: AAA_4; pfam04326 698962006681 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 698962006682 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 698962006683 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 698962006684 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 698962006685 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 698962006686 ATP binding site [chemical binding]; other site 698962006687 putative Mg++ binding site [ion binding]; other site 698962006688 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 698962006689 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 698962006690 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 698962006691 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 698962006692 HsdM N-terminal domain; Region: HsdM_N; pfam12161 698962006693 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 698962006694 Methyltransferase domain; Region: Methyltransf_26; pfam13659 698962006695 Fic family protein [Function unknown]; Region: COG3177 698962006696 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 698962006697 Fic/DOC family; Region: Fic; pfam02661 698962006698 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 698962006699 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 698962006700 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 698962006701 E-class dimer interface [polypeptide binding]; other site 698962006702 P-class dimer interface [polypeptide binding]; other site 698962006703 active site 698962006704 Cu2+ binding site [ion binding]; other site 698962006705 Zn2+ binding site [ion binding]; other site 698962006706 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 698962006707 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962006708 active site 698962006709 HIGH motif; other site 698962006710 nucleotide binding site [chemical binding]; other site 698962006711 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 698962006712 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962006713 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 698962006714 active site 698962006715 KMSKS motif; other site 698962006716 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 698962006717 tRNA binding surface [nucleotide binding]; other site 698962006718 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 698962006719 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 698962006720 Walker A/P-loop; other site 698962006721 ATP binding site [chemical binding]; other site 698962006722 Q-loop/lid; other site 698962006723 ABC transporter signature motif; other site 698962006724 Walker B; other site 698962006725 D-loop; other site 698962006726 H-loop/switch region; other site 698962006727 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 698962006728 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 698962006729 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962006730 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 698962006731 Histidine kinase; Region: HisKA_3; pfam07730 698962006732 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 698962006733 ATP binding site [chemical binding]; other site 698962006734 G-X-G motif; other site 698962006735 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 698962006736 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 698962006737 active site 698962006738 phosphorylation site [posttranslational modification] 698962006739 intermolecular recognition site; other site 698962006740 dimerization interface [polypeptide binding]; other site 698962006741 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 698962006742 DNA binding residues [nucleotide binding] 698962006743 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 698962006744 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 698962006745 Predicted membrane protein [Function unknown]; Region: COG1511 698962006746 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962006747 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962006748 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 698962006749 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 698962006750 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 698962006751 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 698962006752 NAD(P) binding site [chemical binding]; other site 698962006753 catalytic residues [active] 698962006754 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 698962006755 active site 698962006756 phosphorylation site [posttranslational modification] 698962006757 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 698962006758 active site 698962006759 P-loop; other site 698962006760 phosphorylation site [posttranslational modification] 698962006761 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 698962006762 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 698962006763 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 698962006764 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 698962006765 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 698962006766 active site 698962006767 active pocket/dimerization site; other site 698962006768 phosphorylation site [posttranslational modification] 698962006769 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 698962006770 dimerization domain swap beta strand [polypeptide binding]; other site 698962006771 regulatory protein interface [polypeptide binding]; other site 698962006772 active site 698962006773 regulatory phosphorylation site [posttranslational modification]; other site 698962006774 Predicted ATPases [General function prediction only]; Region: COG1106 698962006775 Putative esterase; Region: Esterase; pfam00756 698962006776 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 698962006777 active site 698962006778 Cobalt transport protein; Region: CbiQ; cl00463 698962006779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006780 ABC transporter signature motif; other site 698962006781 Walker B; other site 698962006782 D-loop; other site 698962006783 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 698962006784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 698962006785 Walker A/P-loop; other site 698962006786 ATP binding site [chemical binding]; other site 698962006787 Q-loop/lid; other site 698962006788 ABC transporter signature motif; other site 698962006789 Walker B; other site 698962006790 D-loop; other site 698962006791 H-loop/switch region; other site 698962006792 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 698962006793 active site 698962006794 catalytic residues [active] 698962006795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 698962006796 hypothetical protein; Provisional; Region: PRK13663 698962006797 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 698962006798 putative active site [active] 698962006799 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 698962006800 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 698962006801 SdpI/YhfL protein family; Region: SdpI; pfam13630 698962006802 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 698962006803 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 698962006804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962006805 catalytic residue [active] 698962006806 anthranilate synthase component I; Provisional; Region: PRK13564 698962006807 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 698962006808 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 698962006809 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 698962006810 Glutamine amidotransferase class-I; Region: GATase; pfam00117 698962006811 glutamine binding [chemical binding]; other site 698962006812 catalytic triad [active] 698962006813 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 698962006814 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 698962006815 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 698962006816 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 698962006817 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 698962006818 active site 698962006819 ribulose/triose binding site [chemical binding]; other site 698962006820 phosphate binding site [ion binding]; other site 698962006821 substrate (anthranilate) binding pocket [chemical binding]; other site 698962006822 product (indole) binding pocket [chemical binding]; other site 698962006823 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 698962006824 active site 698962006825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 698962006826 pantoate--beta-alanine ligase; Region: panC; TIGR00018 698962006827 Pantoate-beta-alanine ligase; Region: PanC; cd00560 698962006828 active site 698962006829 ATP-binding site [chemical binding]; other site 698962006830 pantoate-binding site; other site 698962006831 HXXH motif; other site 698962006832 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 698962006833 oligomerization interface [polypeptide binding]; other site 698962006834 active site 698962006835 metal binding site [ion binding]; metal-binding site 698962006836 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 698962006837 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 698962006838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 698962006839 catalytic residue [active] 698962006840 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 698962006841 substrate binding site [chemical binding]; other site 698962006842 active site 698962006843 catalytic residues [active] 698962006844 heterodimer interface [polypeptide binding]; other site 698962006845 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 698962006846 iron-sulfur cluster [ion binding]; other site 698962006847 [2Fe-2S] cluster binding site [ion binding]; other site 698962006848 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 698962006849 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 698962006850 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 698962006851 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 698962006852 hypothetical protein; Validated; Region: PRK00228 698962006853 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 698962006854 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 698962006855 active site 698962006856 NTP binding site [chemical binding]; other site 698962006857 metal binding triad [ion binding]; metal-binding site 698962006858 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 698962006859 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 698962006860 Zn2+ binding site [ion binding]; other site 698962006861 Mg2+ binding site [ion binding]; other site 698962006862 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 698962006863 active site 698962006864 Ap6A binding site [chemical binding]; other site 698962006865 nudix motif; other site 698962006866 metal binding site [ion binding]; metal-binding site 698962006867 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 698962006868 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 698962006869 RNA polymerase sigma factor SigM; Reviewed; Region: PRK09643 698962006870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 698962006871 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 698962006872 DNA binding residues [nucleotide binding] 698962006873 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 698962006874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 698962006875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 698962006876 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 698962006877 catalytic residues [active] 698962006878 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 698962006879 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 698962006880 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 698962006881 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 698962006882 active site 698962006883 metal binding site [ion binding]; metal-binding site 698962006884 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 698962006885 ParB-like nuclease domain; Region: ParBc; pfam02195 698962006886 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 698962006887 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 698962006888 P-loop; other site 698962006889 Magnesium ion binding site [ion binding]; other site 698962006890 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 698962006891 Magnesium ion binding site [ion binding]; other site 698962006892 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 698962006893 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 698962006894 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 698962006895 ribonuclease P; Reviewed; Region: rnpA; PRK03459 698962006896 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399