-- dump date 20140619_111835 -- class Genbank::misc_feature -- table misc_feature_note -- id note 373903000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 373903000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 373903000003 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 373903000004 Walker A motif; other site 373903000005 ATP binding site [chemical binding]; other site 373903000006 Walker B motif; other site 373903000007 arginine finger; other site 373903000008 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 373903000009 DnaA box-binding interface [nucleotide binding]; other site 373903000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 373903000011 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 373903000012 putative DNA binding surface [nucleotide binding]; other site 373903000013 dimer interface [polypeptide binding]; other site 373903000014 beta-clamp/clamp loader binding surface; other site 373903000015 beta-clamp/translesion DNA polymerase binding surface; other site 373903000016 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 373903000017 RNA binding surface [nucleotide binding]; other site 373903000018 recombination protein F; Reviewed; Region: recF; PRK00064 373903000019 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 373903000020 Walker A/P-loop; other site 373903000021 ATP binding site [chemical binding]; other site 373903000022 Q-loop/lid; other site 373903000023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903000024 ABC transporter signature motif; other site 373903000025 Walker B; other site 373903000026 D-loop; other site 373903000027 H-loop/switch region; other site 373903000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 373903000029 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 373903000030 Mg2+ binding site [ion binding]; other site 373903000031 G-X-G motif; other site 373903000032 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 373903000033 anchoring element; other site 373903000034 dimer interface [polypeptide binding]; other site 373903000035 ATP binding site [chemical binding]; other site 373903000036 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 373903000037 active site 373903000038 putative metal-binding site [ion binding]; other site 373903000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 373903000040 DNA gyrase subunit A; Validated; Region: PRK05560 373903000041 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 373903000042 CAP-like domain; other site 373903000043 active site 373903000044 primary dimer interface [polypeptide binding]; other site 373903000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903000051 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 373903000052 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 373903000053 ligand binding site [chemical binding]; other site 373903000054 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 373903000055 Spore germination protein; Region: Spore_permease; cl17796 373903000056 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 373903000057 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 373903000058 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 373903000059 putative oxidoreductase FixC; Provisional; Region: PRK10157 373903000060 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 373903000061 dinuclear metal binding motif [ion binding]; other site 373903000062 Short C-terminal domain; Region: SHOCT; pfam09851 373903000063 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 373903000064 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 373903000065 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 373903000066 ABC-ATPase subunit interface; other site 373903000067 dimer interface [polypeptide binding]; other site 373903000068 putative PBP binding regions; other site 373903000069 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 373903000070 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 373903000071 Walker A/P-loop; other site 373903000072 ATP binding site [chemical binding]; other site 373903000073 Q-loop/lid; other site 373903000074 ABC transporter signature motif; other site 373903000075 Walker B; other site 373903000076 D-loop; other site 373903000077 H-loop/switch region; other site 373903000078 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 373903000079 putative addiction module antidote; Region: doc_partner; TIGR02609 373903000080 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 373903000081 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 373903000082 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 373903000083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 373903000084 Transposase; Region: HTH_Tnp_1; pfam01527 373903000085 putative transposase OrfB; Reviewed; Region: PHA02517 373903000086 HTH-like domain; Region: HTH_21; pfam13276 373903000087 Integrase core domain; Region: rve; pfam00665 373903000088 Integrase core domain; Region: rve_3; pfam13683 373903000089 CAAX protease self-immunity; Region: Abi; pfam02517 373903000090 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 373903000091 putative active site [active] 373903000092 homotetrameric interface [polypeptide binding]; other site 373903000093 metal binding site [ion binding]; metal-binding site 373903000094 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903000095 Coenzyme A binding pocket [chemical binding]; other site 373903000096 Uncharacterized protein family (UPF0180); Region: UPF0180; pfam03698 373903000097 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903000098 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 373903000099 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 373903000100 putative PBP binding loops; other site 373903000101 ABC-ATPase subunit interface; other site 373903000102 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903000103 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 373903000104 dimer interface [polypeptide binding]; other site 373903000105 conserved gate region; other site 373903000106 putative PBP binding loops; other site 373903000107 ABC-ATPase subunit interface; other site 373903000108 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903000109 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903000110 DNA binding site [nucleotide binding] 373903000111 domain linker motif; other site 373903000112 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903000113 dimerization interface [polypeptide binding]; other site 373903000114 ligand binding site [chemical binding]; other site 373903000115 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 373903000116 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 373903000117 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 373903000118 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 373903000119 beta-phosphoglucomutase; Region: bPGM; TIGR01990 373903000120 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 373903000121 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 373903000122 motif II; other site 373903000123 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 373903000124 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903000125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903000126 DNA binding site [nucleotide binding] 373903000127 domain linker motif; other site 373903000128 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903000129 dimerization interface [polypeptide binding]; other site 373903000130 ligand binding site [chemical binding]; other site 373903000131 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 373903000132 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 373903000133 Walker A/P-loop; other site 373903000134 ATP binding site [chemical binding]; other site 373903000135 Q-loop/lid; other site 373903000136 ABC transporter signature motif; other site 373903000137 Walker B; other site 373903000138 D-loop; other site 373903000139 H-loop/switch region; other site 373903000140 TOBE domain; Region: TOBE; pfam03459 373903000141 YabP family; Region: YabP; cl06766 373903000142 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 373903000143 dimerization interface [polypeptide binding]; other site 373903000144 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903000145 dimer interface [polypeptide binding]; other site 373903000146 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903000147 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903000148 dimer interface [polypeptide binding]; other site 373903000149 putative CheW interface [polypeptide binding]; other site 373903000150 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 373903000151 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 373903000152 Septum formation initiator; Region: DivIC; pfam04977 373903000153 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 373903000154 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 373903000155 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 373903000156 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 373903000157 RNA binding site [nucleotide binding]; other site 373903000158 hypothetical protein; Provisional; Region: PRK08582 373903000159 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 373903000160 RNA binding site [nucleotide binding]; other site 373903000161 Protein of unknown function (DUF501); Region: DUF501; pfam04417 373903000162 exopolyphosphatase; Region: exo_poly_only; TIGR03706 373903000163 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 373903000164 stage II sporulation protein E; Region: spore_II_E; TIGR02865 373903000165 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 373903000166 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 373903000167 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 373903000168 Ligand Binding Site [chemical binding]; other site 373903000169 TilS substrate C-terminal domain; Region: TilS_C; smart00977 373903000170 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903000171 active site 373903000172 FtsH Extracellular; Region: FtsH_ext; pfam06480 373903000173 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 373903000174 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 373903000175 Walker A motif; other site 373903000176 ATP binding site [chemical binding]; other site 373903000177 Walker B motif; other site 373903000178 arginine finger; other site 373903000179 Peptidase family M41; Region: Peptidase_M41; pfam01434 373903000180 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 373903000181 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 373903000182 Na binding site [ion binding]; other site 373903000183 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 373903000184 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 373903000185 Potassium binding sites [ion binding]; other site 373903000186 Cesium cation binding sites [ion binding]; other site 373903000187 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 373903000188 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 373903000189 Quinolinate synthetase A protein; Region: NadA; pfam02445 373903000190 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 373903000191 L-aspartate oxidase; Provisional; Region: PRK06175 373903000192 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 373903000193 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 373903000194 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 373903000195 dimerization interface [polypeptide binding]; other site 373903000196 active site 373903000197 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 373903000198 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 373903000199 protein binding site [polypeptide binding]; other site 373903000200 Biotin operon repressor [Transcription]; Region: BirA; COG1654 373903000201 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 373903000202 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 373903000203 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 373903000204 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 373903000205 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 373903000206 ligand binding site [chemical binding]; other site 373903000207 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903000208 nucleotide binding site [chemical binding]; other site 373903000209 Type III pantothenate kinase; Region: Pan_kinase; cl17198 373903000210 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 373903000211 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 373903000212 FMN binding site [chemical binding]; other site 373903000213 active site 373903000214 catalytic residues [active] 373903000215 substrate binding site [chemical binding]; other site 373903000216 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 373903000217 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 373903000218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 373903000219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903000220 Transcriptional regulator [DNA replication, recombination and repair]; Region: tfx; COG1356 373903000221 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 373903000222 Predicted dehydrogenase [General function prediction only]; Region: COG5322 373903000223 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 373903000224 NAD(P) binding pocket [chemical binding]; other site 373903000225 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 373903000226 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 373903000227 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 373903000228 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 373903000229 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 373903000230 dimer interface [polypeptide binding]; other site 373903000231 putative anticodon binding site; other site 373903000232 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 373903000233 motif 1; other site 373903000234 active site 373903000235 motif 2; other site 373903000236 motif 3; other site 373903000237 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 373903000238 Transcriptional regulators [Transcription]; Region: MarR; COG1846 373903000239 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 373903000240 putative DNA binding site [nucleotide binding]; other site 373903000241 dimerization interface [polypeptide binding]; other site 373903000242 putative Zn2+ binding site [ion binding]; other site 373903000243 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 373903000244 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903000245 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903000246 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903000247 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 373903000248 dimer interface [polypeptide binding]; other site 373903000249 conserved gate region; other site 373903000250 putative PBP binding loops; other site 373903000251 ABC-ATPase subunit interface; other site 373903000252 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903000253 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 373903000254 dimer interface [polypeptide binding]; other site 373903000255 conserved gate region; other site 373903000256 putative PBP binding loops; other site 373903000257 ABC-ATPase subunit interface; other site 373903000258 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 373903000259 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 373903000260 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 373903000261 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 373903000262 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 373903000263 UvrB/uvrC motif; Region: UVR; pfam02151 373903000264 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 373903000265 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 373903000266 ADP binding site [chemical binding]; other site 373903000267 phosphagen binding site; other site 373903000268 substrate specificity loop; other site 373903000269 Clp protease ATP binding subunit; Region: clpC; CHL00095 373903000270 Clp amino terminal domain; Region: Clp_N; pfam02861 373903000271 Clp amino terminal domain; Region: Clp_N; pfam02861 373903000272 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 373903000273 Walker A motif; other site 373903000274 ATP binding site [chemical binding]; other site 373903000275 Walker B motif; other site 373903000276 arginine finger; other site 373903000277 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 373903000278 Walker A motif; other site 373903000279 ATP binding site [chemical binding]; other site 373903000280 Walker B motif; other site 373903000281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 373903000282 DNA repair protein RadA; Provisional; Region: PRK11823 373903000283 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 373903000284 Walker A motif/ATP binding site; other site 373903000285 ATP binding site [chemical binding]; other site 373903000286 Walker B motif; other site 373903000287 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903000288 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 373903000289 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 373903000290 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 373903000291 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 373903000292 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 373903000293 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 373903000294 putative active site [active] 373903000295 TRAM domain; Region: TRAM; cl01282 373903000296 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 373903000297 substrate binding site; other site 373903000298 dimer interface; other site 373903000299 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 373903000300 homotrimer interaction site [polypeptide binding]; other site 373903000301 zinc binding site [ion binding]; other site 373903000302 CDP-binding sites; other site 373903000303 FOG: CBS domain [General function prediction only]; Region: COG0517 373903000304 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_3; cd04802 373903000305 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 373903000306 hexamer interface [polypeptide binding]; other site 373903000307 RNA binding site [nucleotide binding]; other site 373903000308 Histidine-zinc binding site [chemical binding]; other site 373903000309 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 373903000310 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 373903000311 active site 373903000312 HIGH motif; other site 373903000313 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 373903000314 active site 373903000315 KMSKS motif; other site 373903000316 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 373903000317 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 373903000318 active site 373903000319 HIGH motif; other site 373903000320 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 373903000321 KMSKS motif; other site 373903000322 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 373903000323 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 373903000324 active site 373903000325 metal binding site [ion binding]; metal-binding site 373903000326 dimerization interface [polypeptide binding]; other site 373903000327 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 373903000328 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 373903000329 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 373903000330 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 373903000331 RNA polymerase factor sigma-70; Validated; Region: PRK08295 373903000332 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903000333 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 373903000334 elongation factor Tu; Reviewed; Region: PRK00049 373903000335 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 373903000336 G1 box; other site 373903000337 GEF interaction site [polypeptide binding]; other site 373903000338 GTP/Mg2+ binding site [chemical binding]; other site 373903000339 Switch I region; other site 373903000340 G2 box; other site 373903000341 G3 box; other site 373903000342 Switch II region; other site 373903000343 G4 box; other site 373903000344 G5 box; other site 373903000345 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 373903000346 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 373903000347 Antibiotic Binding Site [chemical binding]; other site 373903000348 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 373903000349 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 373903000350 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 373903000351 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 373903000352 putative homodimer interface [polypeptide binding]; other site 373903000353 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 373903000354 heterodimer interface [polypeptide binding]; other site 373903000355 homodimer interface [polypeptide binding]; other site 373903000356 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 373903000357 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 373903000358 23S rRNA interface [nucleotide binding]; other site 373903000359 L7/L12 interface [polypeptide binding]; other site 373903000360 putative thiostrepton binding site; other site 373903000361 L25 interface [polypeptide binding]; other site 373903000362 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 373903000363 mRNA/rRNA interface [nucleotide binding]; other site 373903000364 Ribosomal protein L10 leader 373903000365 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 373903000366 23S rRNA interface [nucleotide binding]; other site 373903000367 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 373903000368 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 373903000369 L11 interface [polypeptide binding]; other site 373903000370 putative EF-Tu interaction site [polypeptide binding]; other site 373903000371 putative EF-G interaction site [polypeptide binding]; other site 373903000372 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 373903000373 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 373903000374 RPB12 interaction site [polypeptide binding]; other site 373903000375 RPB1 interaction site [polypeptide binding]; other site 373903000376 RPB10 interaction site [polypeptide binding]; other site 373903000377 RPB11 interaction site [polypeptide binding]; other site 373903000378 RPB3 interaction site [polypeptide binding]; other site 373903000379 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 373903000380 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 373903000381 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 373903000382 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 373903000383 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 373903000384 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 373903000385 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 373903000386 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 373903000387 G-loop; other site 373903000388 DNA binding site [nucleotide binding] 373903000389 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 373903000390 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 373903000391 S17 interaction site [polypeptide binding]; other site 373903000392 S8 interaction site; other site 373903000393 16S rRNA interaction site [nucleotide binding]; other site 373903000394 streptomycin interaction site [chemical binding]; other site 373903000395 23S rRNA interaction site [nucleotide binding]; other site 373903000396 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 373903000397 30S ribosomal protein S7; Validated; Region: PRK05302 373903000398 elongation factor G; Reviewed; Region: PRK00007 373903000399 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 373903000400 G1 box; other site 373903000401 putative GEF interaction site [polypeptide binding]; other site 373903000402 GTP/Mg2+ binding site [chemical binding]; other site 373903000403 Switch I region; other site 373903000404 G2 box; other site 373903000405 G3 box; other site 373903000406 Switch II region; other site 373903000407 G4 box; other site 373903000408 G5 box; other site 373903000409 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 373903000410 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 373903000411 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 373903000412 elongation factor Tu; Reviewed; Region: PRK00049 373903000413 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 373903000414 G1 box; other site 373903000415 GEF interaction site [polypeptide binding]; other site 373903000416 GTP/Mg2+ binding site [chemical binding]; other site 373903000417 Switch I region; other site 373903000418 G2 box; other site 373903000419 G3 box; other site 373903000420 Switch II region; other site 373903000421 G4 box; other site 373903000422 G5 box; other site 373903000423 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 373903000424 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 373903000425 Antibiotic Binding Site [chemical binding]; other site 373903000426 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 373903000427 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 373903000428 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 373903000429 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 373903000430 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 373903000431 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 373903000432 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 373903000433 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 373903000434 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 373903000435 putative translocon binding site; other site 373903000436 protein-rRNA interface [nucleotide binding]; other site 373903000437 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 373903000438 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 373903000439 G-X-X-G motif; other site 373903000440 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 373903000441 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 373903000442 23S rRNA interface [nucleotide binding]; other site 373903000443 5S rRNA interface [nucleotide binding]; other site 373903000444 putative antibiotic binding site [chemical binding]; other site 373903000445 L25 interface [polypeptide binding]; other site 373903000446 L27 interface [polypeptide binding]; other site 373903000447 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 373903000448 putative translocon interaction site; other site 373903000449 23S rRNA interface [nucleotide binding]; other site 373903000450 signal recognition particle (SRP54) interaction site; other site 373903000451 L23 interface [polypeptide binding]; other site 373903000452 trigger factor interaction site; other site 373903000453 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 373903000454 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 373903000455 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 373903000456 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 373903000457 RNA binding site [nucleotide binding]; other site 373903000458 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 373903000459 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 373903000460 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 373903000461 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 373903000462 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 373903000463 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 373903000464 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 373903000465 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 373903000466 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 373903000467 5S rRNA interface [nucleotide binding]; other site 373903000468 L27 interface [polypeptide binding]; other site 373903000469 23S rRNA interface [nucleotide binding]; other site 373903000470 L5 interface [polypeptide binding]; other site 373903000471 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 373903000472 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 373903000473 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 373903000474 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 373903000475 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 373903000476 SecY translocase; Region: SecY; pfam00344 373903000477 adenylate kinase; Reviewed; Region: adk; PRK00279 373903000478 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 373903000479 AMP-binding site [chemical binding]; other site 373903000480 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 373903000481 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 373903000482 active site 373903000483 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 373903000484 RNA binding site [nucleotide binding]; other site 373903000485 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 373903000486 rRNA binding site [nucleotide binding]; other site 373903000487 predicted 30S ribosome binding site; other site 373903000488 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 373903000489 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 373903000490 30S ribosomal protein S13; Region: bact_S13; TIGR03631 373903000491 30S ribosomal protein S11; Validated; Region: PRK05309 373903000492 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 373903000493 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 373903000494 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 373903000495 RNA binding surface [nucleotide binding]; other site 373903000496 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 373903000497 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 373903000498 alphaNTD - beta interaction site [polypeptide binding]; other site 373903000499 alphaNTD homodimer interface [polypeptide binding]; other site 373903000500 alphaNTD - beta' interaction site [polypeptide binding]; other site 373903000501 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 373903000502 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 373903000503 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 373903000504 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 373903000505 Walker A/P-loop; other site 373903000506 ATP binding site [chemical binding]; other site 373903000507 Q-loop/lid; other site 373903000508 ABC transporter signature motif; other site 373903000509 Walker B; other site 373903000510 D-loop; other site 373903000511 H-loop/switch region; other site 373903000512 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 373903000513 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 373903000514 Walker A/P-loop; other site 373903000515 ATP binding site [chemical binding]; other site 373903000516 Q-loop/lid; other site 373903000517 ABC transporter signature motif; other site 373903000518 Walker B; other site 373903000519 D-loop; other site 373903000520 H-loop/switch region; other site 373903000521 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 373903000522 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 373903000523 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 373903000524 dimerization interface 3.5A [polypeptide binding]; other site 373903000525 active site 373903000526 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 373903000527 23S rRNA interface [nucleotide binding]; other site 373903000528 L3 interface [polypeptide binding]; other site 373903000529 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 373903000530 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 373903000531 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 373903000532 AMMECR1; Region: AMMECR1; pfam01871 373903000533 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 373903000534 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 373903000535 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 373903000536 FeS/SAM binding site; other site 373903000537 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 373903000538 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 373903000539 active site 373903000540 substrate binding site [chemical binding]; other site 373903000541 metal binding site [ion binding]; metal-binding site 373903000542 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 373903000543 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 373903000544 glutaminase active site [active] 373903000545 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 373903000546 DNA binding residues [nucleotide binding] 373903000547 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 373903000548 dimer interface [polypeptide binding]; other site 373903000549 active site 373903000550 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 373903000551 dimer interface [polypeptide binding]; other site 373903000552 active site 373903000553 ADP-glucose phosphorylase; Region: PLN02643 373903000554 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 373903000555 dimer interface [polypeptide binding]; other site 373903000556 active site 373903000557 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 373903000558 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 373903000559 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 373903000560 Accessory gene regulator B; Region: AgrB; pfam04647 373903000561 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 373903000562 ATP binding site [chemical binding]; other site 373903000563 Mg2+ binding site [ion binding]; other site 373903000564 G-X-G motif; other site 373903000565 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 373903000566 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 373903000567 active site 373903000568 phosphorylation site [posttranslational modification] 373903000569 intermolecular recognition site; other site 373903000570 dimerization interface [polypeptide binding]; other site 373903000571 LytTr DNA-binding domain; Region: LytTR; pfam04397 373903000572 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 373903000573 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 373903000574 Uncharacterized conserved protein [Function unknown]; Region: COG0062 373903000575 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 373903000576 putative substrate binding site [chemical binding]; other site 373903000577 putative ATP binding site [chemical binding]; other site 373903000578 alanine racemase; Reviewed; Region: alr; PRK00053 373903000579 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 373903000580 active site 373903000581 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 373903000582 dimer interface [polypeptide binding]; other site 373903000583 substrate binding site [chemical binding]; other site 373903000584 catalytic residues [active] 373903000585 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 373903000586 dimerization domain swap beta strand [polypeptide binding]; other site 373903000587 regulatory protein interface [polypeptide binding]; other site 373903000588 active site 373903000589 regulatory phosphorylation site [posttranslational modification]; other site 373903000590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 373903000591 trimer interface [polypeptide binding]; other site 373903000592 active site 373903000593 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 373903000594 RNA binding site [nucleotide binding]; other site 373903000595 DNA helicase, putative; Region: TIGR00376 373903000596 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 373903000597 Walker A motif; other site 373903000598 ATP binding site [chemical binding]; other site 373903000599 AAA domain; Region: AAA_12; pfam13087 373903000600 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 373903000601 PemK-like protein; Region: PemK; pfam02452 373903000602 L-asparaginase II; Region: Asparaginase_II; pfam06089 373903000603 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 373903000604 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 373903000605 active site 373903000606 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 373903000607 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903000608 Putative Fe-S cluster; Region: FeS; cl17515 373903000609 PAS fold; Region: PAS_4; pfam08448 373903000610 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 373903000611 putative active site [active] 373903000612 heme pocket [chemical binding]; other site 373903000613 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 373903000614 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 373903000615 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 373903000616 putative dimer interface [polypeptide binding]; other site 373903000617 [2Fe-2S] cluster binding site [ion binding]; other site 373903000618 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 373903000619 dimer interface [polypeptide binding]; other site 373903000620 [2Fe-2S] cluster binding site [ion binding]; other site 373903000621 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 373903000622 SLBB domain; Region: SLBB; pfam10531 373903000623 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 373903000624 4Fe-4S binding domain; Region: Fer4; pfam00037 373903000625 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 373903000626 4Fe-4S binding domain; Region: Fer4; pfam00037 373903000627 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 373903000628 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 373903000629 catalytic loop [active] 373903000630 iron binding site [ion binding]; other site 373903000631 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 373903000632 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 373903000633 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 373903000634 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903000635 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 373903000636 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 373903000637 [2Fe-2S] cluster binding site [ion binding]; other site 373903000638 dimer interface [polypeptide binding]; other site 373903000639 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 373903000640 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 373903000641 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 373903000642 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 373903000643 sequence-specific DNA binding site [nucleotide binding]; other site 373903000644 salt bridge; other site 373903000645 Cupin domain; Region: Cupin_2; pfam07883 373903000646 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 373903000647 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 373903000648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903000649 homodimer interface [polypeptide binding]; other site 373903000650 catalytic residue [active] 373903000651 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 373903000652 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 373903000653 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 373903000654 A new structural DNA glycosylase; Region: AlkD_like; cd06561 373903000655 active site 373903000656 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 373903000657 diiron binding motif [ion binding]; other site 373903000658 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 373903000659 T-box leader 373903000660 prephenate dehydratase; Provisional; Region: PRK11898 373903000661 Prephenate dehydratase; Region: PDT; pfam00800 373903000662 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 373903000663 putative L-Phe binding site [chemical binding]; other site 373903000664 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 373903000665 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 373903000666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903000667 homodimer interface [polypeptide binding]; other site 373903000668 catalytic residue [active] 373903000669 gamma-glutamyl kinase; Provisional; Region: PRK05429 373903000670 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 373903000671 nucleotide binding site [chemical binding]; other site 373903000672 homotetrameric interface [polypeptide binding]; other site 373903000673 putative phosphate binding site [ion binding]; other site 373903000674 putative allosteric binding site; other site 373903000675 PUA domain; Region: PUA; pfam01472 373903000676 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 373903000677 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 373903000678 putative catalytic cysteine [active] 373903000679 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 373903000680 pyrroline-5-carboxylate reductase; Region: PLN02688 373903000681 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 373903000682 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 373903000683 Glycoprotease family; Region: Peptidase_M22; pfam00814 373903000684 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 373903000685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903000686 Coenzyme A binding pocket [chemical binding]; other site 373903000687 UGMP family protein; Validated; Region: PRK09604 373903000688 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 373903000689 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903000690 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 373903000691 Radical SAM superfamily; Region: Radical_SAM; pfam04055 373903000692 FeS/SAM binding site; other site 373903000693 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 373903000694 Protein of unknown function (DUF512); Region: DUF512; pfam04459 373903000695 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 373903000696 oligomerisation interface [polypeptide binding]; other site 373903000697 mobile loop; other site 373903000698 roof hairpin; other site 373903000699 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 373903000700 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 373903000701 ring oligomerisation interface [polypeptide binding]; other site 373903000702 ATP/Mg binding site [chemical binding]; other site 373903000703 stacking interactions; other site 373903000704 hinge regions; other site 373903000705 GMP synthase; Reviewed; Region: guaA; PRK00074 373903000706 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 373903000707 AMP/PPi binding site [chemical binding]; other site 373903000708 candidate oxyanion hole; other site 373903000709 catalytic triad [active] 373903000710 potential glutamine specificity residues [chemical binding]; other site 373903000711 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 373903000712 ATP Binding subdomain [chemical binding]; other site 373903000713 Ligand Binding sites [chemical binding]; other site 373903000714 Dimerization subdomain; other site 373903000715 Trp repressor protein; Region: Trp_repressor; cl17266 373903000716 Domain of unknown function (DUF389); Region: DUF389; pfam04087 373903000717 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 373903000718 4Fe-4S binding domain; Region: Fer4; pfam00037 373903000719 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903000720 Putative Fe-S cluster; Region: FeS; cl17515 373903000721 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 373903000722 PAS domain; Region: PAS_9; pfam13426 373903000723 putative active site [active] 373903000724 heme pocket [chemical binding]; other site 373903000725 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 373903000726 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 373903000727 putative dimer interface [polypeptide binding]; other site 373903000728 [2Fe-2S] cluster binding site [ion binding]; other site 373903000729 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 373903000730 4Fe-4S binding domain; Region: Fer4; pfam00037 373903000731 4Fe-4S binding domain; Region: Fer4; pfam00037 373903000732 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903000733 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 373903000734 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 373903000735 CoA binding domain; Region: CoA_binding; pfam02629 373903000736 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 373903000737 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 373903000738 putative catalytic cysteine [active] 373903000739 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 373903000740 putative active site [active] 373903000741 metal binding site [ion binding]; metal-binding site 373903000742 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 373903000743 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 373903000744 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 373903000745 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903000746 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 373903000747 Protease prsW family; Region: PrsW-protease; pfam13367 373903000748 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 373903000749 hydroxyglutarate oxidase; Provisional; Region: PRK11728 373903000750 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 373903000751 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 373903000752 minor groove reading motif; other site 373903000753 helix-hairpin-helix signature motif; other site 373903000754 substrate binding pocket [chemical binding]; other site 373903000755 active site 373903000756 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 373903000757 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 373903000758 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 373903000759 dimer interface [polypeptide binding]; other site 373903000760 motif 1; other site 373903000761 active site 373903000762 motif 2; other site 373903000763 motif 3; other site 373903000764 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 373903000765 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 373903000766 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 373903000767 histidinol dehydrogenase; Region: hisD; TIGR00069 373903000768 NAD binding site [chemical binding]; other site 373903000769 dimerization interface [polypeptide binding]; other site 373903000770 product binding site; other site 373903000771 substrate binding site [chemical binding]; other site 373903000772 zinc binding site [ion binding]; other site 373903000773 catalytic residues [active] 373903000774 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 373903000775 4-fold oligomerization interface [polypeptide binding]; other site 373903000776 putative active site pocket [active] 373903000777 metal binding residues [ion binding]; metal-binding site 373903000778 3-fold/trimer interface [polypeptide binding]; other site 373903000779 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 373903000780 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 373903000781 putative active site [active] 373903000782 oxyanion strand; other site 373903000783 catalytic triad [active] 373903000784 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 373903000785 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 373903000786 catalytic residues [active] 373903000787 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 373903000788 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 373903000789 substrate binding site [chemical binding]; other site 373903000790 glutamase interaction surface [polypeptide binding]; other site 373903000791 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 373903000792 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 373903000793 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 373903000794 metal binding site [ion binding]; metal-binding site 373903000795 Coat F domain; Region: Coat_F; pfam07875 373903000796 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 373903000797 dinuclear metal binding motif [ion binding]; other site 373903000798 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 373903000799 GIY-YIG motif/motif A; other site 373903000800 putative active site [active] 373903000801 putative metal binding site [ion binding]; other site 373903000802 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 373903000803 Part of AAA domain; Region: AAA_19; pfam13245 373903000804 Family description; Region: UvrD_C_2; pfam13538 373903000805 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 373903000806 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 373903000807 nucleotide binding pocket [chemical binding]; other site 373903000808 K-X-D-G motif; other site 373903000809 catalytic site [active] 373903000810 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 373903000811 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 373903000812 Dimer interface [polypeptide binding]; other site 373903000813 BRCT sequence motif; other site 373903000814 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 373903000815 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 373903000816 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 373903000817 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 373903000818 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 373903000819 GatB domain; Region: GatB_Yqey; smart00845 373903000820 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 373903000821 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 373903000822 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 373903000823 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 373903000824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903000825 Walker A/P-loop; other site 373903000826 ATP binding site [chemical binding]; other site 373903000827 Q-loop/lid; other site 373903000828 ABC transporter signature motif; other site 373903000829 Walker B; other site 373903000830 D-loop; other site 373903000831 H-loop/switch region; other site 373903000832 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 373903000833 dimerization interface [polypeptide binding]; other site 373903000834 putative DNA binding site [nucleotide binding]; other site 373903000835 putative Zn2+ binding site [ion binding]; other site 373903000836 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 373903000837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 373903000838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 373903000839 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 373903000840 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 373903000841 active site residue [active] 373903000842 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 373903000843 CPxP motif; other site 373903000844 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 373903000845 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 373903000846 active site 373903000847 catalytic site [active] 373903000848 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 373903000849 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 373903000850 Walker A/P-loop; other site 373903000851 ATP binding site [chemical binding]; other site 373903000852 Q-loop/lid; other site 373903000853 ABC transporter signature motif; other site 373903000854 Walker B; other site 373903000855 D-loop; other site 373903000856 H-loop/switch region; other site 373903000857 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 373903000858 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 373903000859 Walker A/P-loop; other site 373903000860 ATP binding site [chemical binding]; other site 373903000861 Q-loop/lid; other site 373903000862 ABC transporter signature motif; other site 373903000863 Walker B; other site 373903000864 D-loop; other site 373903000865 H-loop/switch region; other site 373903000866 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 373903000867 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 373903000868 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 373903000869 dimerization interface 3.5A [polypeptide binding]; other site 373903000870 active site 373903000871 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 373903000872 23S rRNA interface [nucleotide binding]; other site 373903000873 L3 interface [polypeptide binding]; other site 373903000874 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 373903000875 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 373903000876 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 373903000877 AMMECR1; Region: AMMECR1; pfam01871 373903000878 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 373903000879 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 373903000880 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 373903000881 FeS/SAM binding site; other site 373903000882 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 373903000883 Outer membrane efflux protein; Region: OEP; pfam02321 373903000884 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 373903000885 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 373903000886 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 373903000887 HlyD family secretion protein; Region: HlyD_3; pfam13437 373903000888 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 373903000889 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 373903000890 Walker A/P-loop; other site 373903000891 ATP binding site [chemical binding]; other site 373903000892 Q-loop/lid; other site 373903000893 ABC transporter signature motif; other site 373903000894 Walker B; other site 373903000895 D-loop; other site 373903000896 H-loop/switch region; other site 373903000897 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903000898 FtsX-like permease family; Region: FtsX; pfam02687 373903000899 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903000900 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 373903000901 FtsX-like permease family; Region: FtsX; pfam02687 373903000902 Yip1 domain; Region: Yip1; pfam04893 373903000903 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 373903000904 Predicted membrane protein [Function unknown]; Region: COG1971 373903000905 Domain of unknown function DUF; Region: DUF204; pfam02659 373903000906 Domain of unknown function DUF; Region: DUF204; pfam02659 373903000907 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 373903000908 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 373903000909 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 373903000910 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 373903000911 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 373903000912 active site 373903000913 catalytic tetrad [active] 373903000914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903000915 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 373903000916 active site 373903000917 catalytic residues [active] 373903000918 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 373903000919 Interdomain contacts; other site 373903000920 Cytokine receptor motif; other site 373903000921 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 373903000922 Ca binding site [ion binding]; other site 373903000923 ligand binding site I [chemical binding]; other site 373903000924 homodimer interface [polypeptide binding]; other site 373903000925 ligand binding site II [chemical binding]; other site 373903000926 manganese transport transcriptional regulator; Provisional; Region: PRK03902 373903000927 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 373903000928 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 373903000929 Nucleoside recognition; Region: Gate; pfam07670 373903000930 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 373903000931 Nucleoside recognition; Region: Gate; pfam07670 373903000932 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 373903000933 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 373903000934 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 373903000935 G1 box; other site 373903000936 G1 box; other site 373903000937 GTP/Mg2+ binding site [chemical binding]; other site 373903000938 GTP/Mg2+ binding site [chemical binding]; other site 373903000939 Switch I region; other site 373903000940 G2 box; other site 373903000941 G3 box; other site 373903000942 Switch II region; other site 373903000943 G4 box; other site 373903000944 G5 box; other site 373903000945 FeoA domain; Region: FeoA; pfam04023 373903000946 CAAX protease self-immunity; Region: Abi; pfam02517 373903000947 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 373903000948 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 373903000949 dimerization interface [polypeptide binding]; other site 373903000950 putative DNA binding site [nucleotide binding]; other site 373903000951 putative Zn2+ binding site [ion binding]; other site 373903000952 Predicted integral membrane protein [Function unknown]; Region: COG5658 373903000953 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 373903000954 SdpI/YhfL protein family; Region: SdpI; pfam13630 373903000955 CAAX protease self-immunity; Region: Abi; pfam02517 373903000956 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 373903000957 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 373903000958 Walker A/P-loop; other site 373903000959 ATP binding site [chemical binding]; other site 373903000960 Q-loop/lid; other site 373903000961 ABC transporter signature motif; other site 373903000962 Walker B; other site 373903000963 D-loop; other site 373903000964 H-loop/switch region; other site 373903000965 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 373903000966 Coenzyme A binding pocket [chemical binding]; other site 373903000967 Sterol carrier protein domain; Region: SCP2_2; pfam13530 373903000968 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 373903000969 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 373903000970 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 373903000971 heterotetramer interface [polypeptide binding]; other site 373903000972 active site pocket [active] 373903000973 cleavage site 373903000974 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 373903000975 feedback inhibition sensing region; other site 373903000976 homohexameric interface [polypeptide binding]; other site 373903000977 nucleotide binding site [chemical binding]; other site 373903000978 N-acetyl-L-glutamate binding site [chemical binding]; other site 373903000979 acetylornithine aminotransferase; Provisional; Region: PRK02627 373903000980 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 373903000981 inhibitor-cofactor binding pocket; inhibition site 373903000982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903000983 catalytic residue [active] 373903000984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903000985 Walker A/P-loop; other site 373903000986 ATP binding site [chemical binding]; other site 373903000987 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 373903000988 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903000989 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 373903000990 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 373903000991 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 373903000992 catalytic site [active] 373903000993 subunit interface [polypeptide binding]; other site 373903000994 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 373903000995 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 373903000996 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 373903000997 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 373903000998 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 373903000999 ATP-grasp domain; Region: ATP-grasp_4; cl17255 373903001000 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 373903001001 substrate binding site [chemical binding]; other site 373903001002 argininosuccinate synthase; Provisional; Region: PRK13820 373903001003 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 373903001004 ANP binding site [chemical binding]; other site 373903001005 Substrate Binding Site II [chemical binding]; other site 373903001006 Substrate Binding Site I [chemical binding]; other site 373903001007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903001008 Coenzyme A binding pocket [chemical binding]; other site 373903001009 argininosuccinate lyase; Provisional; Region: PRK00855 373903001010 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 373903001011 active sites [active] 373903001012 tetramer interface [polypeptide binding]; other site 373903001013 Predicted permeases [General function prediction only]; Region: COG0679 373903001014 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 373903001015 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903001016 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 373903001017 PAS domain; Region: PAS_9; pfam13426 373903001018 putative active site [active] 373903001019 heme pocket [chemical binding]; other site 373903001020 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 373903001021 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 373903001022 Walker A motif; other site 373903001023 ATP binding site [chemical binding]; other site 373903001024 Walker B motif; other site 373903001025 arginine finger; other site 373903001026 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 373903001027 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 373903001028 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 373903001029 putative dimer interface [polypeptide binding]; other site 373903001030 [2Fe-2S] cluster binding site [ion binding]; other site 373903001031 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 373903001032 SLBB domain; Region: SLBB; pfam10531 373903001033 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 373903001034 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 373903001035 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 373903001036 catalytic loop [active] 373903001037 iron binding site [ion binding]; other site 373903001038 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 373903001039 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 373903001040 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903001041 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 373903001042 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 373903001043 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 373903001044 CoA binding domain; Region: CoA_binding; smart00881 373903001045 TRAM domain; Region: TRAM; cl01282 373903001046 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 373903001047 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 373903001048 S-adenosylmethionine binding site [chemical binding]; other site 373903001049 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903001050 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 373903001051 dimerization interface [polypeptide binding]; other site 373903001052 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903001053 dimer interface [polypeptide binding]; other site 373903001054 putative CheW interface [polypeptide binding]; other site 373903001055 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 373903001056 Protein of unknown function (DUF523); Region: DUF523; pfam04463 373903001057 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 373903001058 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903001059 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903001060 germination protein YpeB; Region: spore_YpeB; TIGR02889 373903001061 Uncharacterized conserved protein [Function unknown]; Region: COG2006 373903001062 Domain of unknown function (DUF362); Region: DUF362; pfam04015 373903001063 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 373903001064 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903001065 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 373903001066 active site 373903001067 metal binding site [ion binding]; metal-binding site 373903001068 homotetramer interface [polypeptide binding]; other site 373903001069 Protein of unknown function (DUF964); Region: DUF964; cl01483 373903001070 NifU-like domain; Region: NifU; cl00484 373903001071 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 373903001072 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 373903001073 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 373903001074 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 373903001075 active site 373903001076 PHP Thumb interface [polypeptide binding]; other site 373903001077 metal binding site [ion binding]; metal-binding site 373903001078 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 373903001079 generic binding surface II; other site 373903001080 generic binding surface I; other site 373903001081 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 373903001082 Aspartase; Region: Aspartase; cd01357 373903001083 active sites [active] 373903001084 tetramer interface [polypeptide binding]; other site 373903001085 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 373903001086 transcription attenuation protein MtrB; Provisional; Region: PRK13251 373903001087 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 373903001088 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 373903001089 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 373903001090 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 373903001091 6-phosphofructokinase; Provisional; Region: PRK03202 373903001092 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 373903001093 active site 373903001094 ADP/pyrophosphate binding site [chemical binding]; other site 373903001095 dimerization interface [polypeptide binding]; other site 373903001096 allosteric effector site; other site 373903001097 fructose-1,6-bisphosphate binding site; other site 373903001098 pyruvate kinase; Provisional; Region: PRK06354 373903001099 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 373903001100 domain interfaces; other site 373903001101 active site 373903001102 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 373903001103 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 373903001104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903001105 DNA-binding site [nucleotide binding]; DNA binding site 373903001106 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 373903001107 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 373903001108 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 373903001109 putative NAD(P) binding site [chemical binding]; other site 373903001110 catalytic Zn binding site [ion binding]; other site 373903001111 structural Zn binding site [ion binding]; other site 373903001112 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 373903001113 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 373903001114 DAK2 domain; Region: Dak2; pfam02734 373903001115 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 373903001116 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 373903001117 active site 373903001118 intersubunit interactions; other site 373903001119 catalytic residue [active] 373903001120 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 373903001121 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 373903001122 TPP-binding site [chemical binding]; other site 373903001123 dimer interface [polypeptide binding]; other site 373903001124 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 373903001125 PYR/PP interface [polypeptide binding]; other site 373903001126 dimer interface [polypeptide binding]; other site 373903001127 TPP binding site [chemical binding]; other site 373903001128 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 373903001129 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 373903001130 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903001131 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 373903001132 dimer interface [polypeptide binding]; other site 373903001133 conserved gate region; other site 373903001134 putative PBP binding loops; other site 373903001135 ABC-ATPase subunit interface; other site 373903001136 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 373903001137 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 373903001138 Walker A/P-loop; other site 373903001139 ATP binding site [chemical binding]; other site 373903001140 Q-loop/lid; other site 373903001141 ABC transporter signature motif; other site 373903001142 Walker B; other site 373903001143 D-loop; other site 373903001144 H-loop/switch region; other site 373903001145 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 373903001146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903001147 Walker A/P-loop; other site 373903001148 ATP binding site [chemical binding]; other site 373903001149 Q-loop/lid; other site 373903001150 ABC transporter signature motif; other site 373903001151 Walker B; other site 373903001152 D-loop; other site 373903001153 H-loop/switch region; other site 373903001154 TOBE domain; Region: TOBE_2; pfam08402 373903001155 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903001156 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903001157 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 373903001158 dimerization interface [polypeptide binding]; other site 373903001159 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903001160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903001161 dimer interface [polypeptide binding]; other site 373903001162 putative CheW interface [polypeptide binding]; other site 373903001163 Domain of unknown function DUF77; Region: DUF77; pfam01910 373903001164 S-layer homology domain; Region: SLH; pfam00395 373903001165 S-layer homology domain; Region: SLH; pfam00395 373903001166 S-layer homology domain; Region: SLH; pfam00395 373903001167 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 373903001168 AAA domain; Region: AAA_32; pfam13654 373903001169 CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with...; Region: CIDE_N; cl02541 373903001170 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 373903001171 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903001172 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 373903001173 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 373903001174 putative DNA binding site [nucleotide binding]; other site 373903001175 putative homodimer interface [polypeptide binding]; other site 373903001176 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 373903001177 nucleotide binding site [chemical binding]; other site 373903001178 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 373903001179 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 373903001180 active site 373903001181 DNA binding site [nucleotide binding] 373903001182 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 373903001183 DNA binding site [nucleotide binding] 373903001184 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 373903001185 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 373903001186 active site 373903001187 MYND finger; Region: zf-MYND; pfam01753 373903001188 Helix-turn-helix domain; Region: HTH_17; pfam12728 373903001189 CHC2 zinc finger; Region: zf-CHC2; cl17510 373903001190 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 373903001191 active site 373903001192 metal binding site [ion binding]; metal-binding site 373903001193 interdomain interaction site; other site 373903001194 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 373903001195 ERCC4 domain; Region: ERCC4; pfam02732 373903001196 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 373903001197 Clp protease; Region: CLP_protease; pfam00574 373903001198 oligomer interface [polypeptide binding]; other site 373903001199 active site residues [active] 373903001200 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 373903001201 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 373903001202 Int/Topo IB signature motif; other site 373903001203 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 373903001204 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 373903001205 GIY-YIG motif/motif A; other site 373903001206 putative active site [active] 373903001207 putative metal binding site [ion binding]; other site 373903001208 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 373903001209 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 373903001210 active site 373903001211 catalytic site [active] 373903001212 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 373903001213 Sodium Bile acid symporter family; Region: SBF; cl17470 373903001214 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 373903001215 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 373903001216 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 373903001217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903001218 Walker A/P-loop; other site 373903001219 ATP binding site [chemical binding]; other site 373903001220 Q-loop/lid; other site 373903001221 ABC transporter signature motif; other site 373903001222 Walker B; other site 373903001223 D-loop; other site 373903001224 H-loop/switch region; other site 373903001225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903001226 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903001227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903001228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903001229 CcmE; Region: CcmE; cl00994 373903001230 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 373903001231 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 373903001232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903001233 Walker A/P-loop; other site 373903001234 ATP binding site [chemical binding]; other site 373903001235 Q-loop/lid; other site 373903001236 ABC transporter signature motif; other site 373903001237 Walker B; other site 373903001238 D-loop; other site 373903001239 H-loop/switch region; other site 373903001240 CcmB protein; Region: CcmB; cl17444 373903001241 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmC; COG0755 373903001242 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 373903001243 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 373903001244 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 373903001245 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 373903001246 nickel binding site [ion binding]; other site 373903001247 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 373903001248 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 373903001249 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 373903001250 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 373903001251 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 373903001252 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 373903001253 Acylphosphatase; Region: Acylphosphatase; pfam00708 373903001254 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 373903001255 HypF finger; Region: zf-HYPF; pfam07503 373903001256 HypF finger; Region: zf-HYPF; pfam07503 373903001257 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 373903001258 HupF/HypC family; Region: HupF_HypC; pfam01455 373903001259 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 373903001260 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 373903001261 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 373903001262 dimerization interface [polypeptide binding]; other site 373903001263 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 373903001264 ATP binding site [chemical binding]; other site 373903001265 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 373903001266 diiron binding motif [ion binding]; other site 373903001267 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 373903001268 GIY-YIG motif/motif A; other site 373903001269 putative active site [active] 373903001270 putative metal binding site [ion binding]; other site 373903001271 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 373903001272 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 373903001273 active site 373903001274 catalytic tetrad [active] 373903001275 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 373903001276 Uncharacterized conserved protein [Function unknown]; Region: COG1633 373903001277 dimanganese center [ion binding]; other site 373903001278 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 373903001279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903001280 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 373903001281 DNA binding residues [nucleotide binding] 373903001282 Putative zinc-finger; Region: zf-HC2; pfam13490 373903001283 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 373903001284 emp24/gp25L/p24 family/GOLD; Region: EMP24_GP25L; pfam01105 373903001285 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 373903001286 FMN-binding domain; Region: FMN_bind; cl01081 373903001287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 373903001288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 373903001289 metal binding site [ion binding]; metal-binding site 373903001290 active site 373903001291 I-site; other site 373903001292 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 373903001293 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 373903001294 active site 373903001295 metal binding site [ion binding]; metal-binding site 373903001296 DNA binding site [nucleotide binding] 373903001297 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 373903001298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903001299 Walker A/P-loop; other site 373903001300 ATP binding site [chemical binding]; other site 373903001301 Q-loop/lid; other site 373903001302 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 373903001303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903001304 ABC transporter signature motif; other site 373903001305 Walker B; other site 373903001306 D-loop; other site 373903001307 H-loop/switch region; other site 373903001308 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 373903001309 MarR family; Region: MarR_2; pfam12802 373903001310 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 373903001311 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 373903001312 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 373903001313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903001314 DNA-binding site [nucleotide binding]; DNA binding site 373903001315 UTRA domain; Region: UTRA; pfam07702 373903001316 Chromate transporter; Region: Chromate_transp; pfam02417 373903001317 Chromate transporter; Region: Chromate_transp; pfam02417 373903001318 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 373903001319 dimer interface [polypeptide binding]; other site 373903001320 pyridoxal binding site [chemical binding]; other site 373903001321 ATP binding site [chemical binding]; other site 373903001322 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 373903001323 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 373903001324 FeS/SAM binding site; other site 373903001325 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 373903001326 putative recombination protein RecB; Provisional; Region: PRK13909 373903001327 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 373903001328 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 373903001329 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 373903001330 active site 373903001331 Zn binding site [ion binding]; other site 373903001332 Glycosyl hydrolase family 81; Region: Glyco_hydro_81; cl02310 373903001333 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 373903001334 Interdomain contacts; other site 373903001335 Cytokine receptor motif; other site 373903001336 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 373903001337 Interdomain contacts; other site 373903001338 Cytokine receptor motif; other site 373903001339 N-terminal-like domain of Paenibacillus sp. YM-1 Laminaribiose Phosphorylase and similar proteins; Region: GH94N_LBP_like; cd11749 373903001340 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 373903001341 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 373903001342 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 373903001343 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 373903001344 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903001345 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903001346 DNA binding site [nucleotide binding] 373903001347 domain linker motif; other site 373903001348 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903001349 dimerization interface [polypeptide binding]; other site 373903001350 ligand binding site [chemical binding]; other site 373903001351 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 373903001352 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 373903001353 active site 373903001354 catalytic residues [active] 373903001355 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 373903001356 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 373903001357 Cna protein B-type domain; Region: Cna_B_2; pfam13715 373903001358 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 373903001359 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 373903001360 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 373903001361 active site 373903001362 catalytic residues [active] 373903001363 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 373903001364 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903001365 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903001366 DNA binding site [nucleotide binding] 373903001367 domain linker motif; other site 373903001368 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903001369 dimerization interface [polypeptide binding]; other site 373903001370 ligand binding site [chemical binding]; other site 373903001371 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903001372 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 373903001373 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 373903001374 dimer interface [polypeptide binding]; other site 373903001375 conserved gate region; other site 373903001376 ABC-ATPase subunit interface; other site 373903001377 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903001378 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 373903001379 dimer interface [polypeptide binding]; other site 373903001380 conserved gate region; other site 373903001381 putative PBP binding loops; other site 373903001382 ABC-ATPase subunit interface; other site 373903001383 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 373903001384 dimerization interface [polypeptide binding]; other site 373903001385 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903001386 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903001387 dimer interface [polypeptide binding]; other site 373903001388 putative CheW interface [polypeptide binding]; other site 373903001389 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 373903001390 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 373903001391 FeS/SAM binding site; other site 373903001392 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 373903001393 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 373903001394 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; cl15377 373903001395 FeS/SAM binding site; other site 373903001396 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 373903001397 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 373903001398 Walker A/P-loop; other site 373903001399 ATP binding site [chemical binding]; other site 373903001400 Q-loop/lid; other site 373903001401 ABC transporter signature motif; other site 373903001402 Walker B; other site 373903001403 D-loop; other site 373903001404 H-loop/switch region; other site 373903001405 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903001406 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903001407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903001408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903001409 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 373903001410 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 373903001411 FeS/SAM binding site; other site 373903001412 DNA adenine methylase (dam); Region: dam; TIGR00571 373903001413 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 373903001414 HsdM N-terminal domain; Region: HsdM_N; pfam12161 373903001415 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 373903001416 S-adenosylmethionine binding site [chemical binding]; other site 373903001417 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 373903001418 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 373903001419 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 373903001420 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 373903001421 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 373903001422 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 373903001423 ATP binding site [chemical binding]; other site 373903001424 putative Mg++ binding site [ion binding]; other site 373903001425 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 373903001426 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 373903001427 Protein of unknown function DUF45; Region: DUF45; pfam01863 373903001428 HTH-like domain; Region: HTH_21; pfam13276 373903001429 Integrase core domain; Region: rve; pfam00665 373903001430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 373903001431 Transposase; Region: HTH_Tnp_1; pfam01527 373903001432 Staphylococcal nuclease homologues; Region: SNc; smart00318 373903001433 Catalytic site; other site 373903001434 Staphylococcal nuclease homologue; Region: SNase; pfam00565 373903001435 Predicted transcriptional regulators [Transcription]; Region: COG1725 373903001436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903001437 DNA-binding site [nucleotide binding]; DNA binding site 373903001438 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 373903001439 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 373903001440 Walker A/P-loop; other site 373903001441 ATP binding site [chemical binding]; other site 373903001442 Q-loop/lid; other site 373903001443 ABC transporter signature motif; other site 373903001444 Walker B; other site 373903001445 D-loop; other site 373903001446 H-loop/switch region; other site 373903001447 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 373903001448 nucleotide binding site/active site [active] 373903001449 HIT family signature motif; other site 373903001450 catalytic residue [active] 373903001451 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903001452 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903001453 DNA binding site [nucleotide binding] 373903001454 domain linker motif; other site 373903001455 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903001456 dimerization interface [polypeptide binding]; other site 373903001457 ligand binding site [chemical binding]; other site 373903001458 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903001459 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 373903001460 substrate binding site [chemical binding]; other site 373903001461 dimer interface [polypeptide binding]; other site 373903001462 ATP binding site [chemical binding]; other site 373903001463 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 373903001464 dimer interface [polypeptide binding]; other site 373903001465 conserved gate region; other site 373903001466 putative PBP binding loops; other site 373903001467 ABC-ATPase subunit interface; other site 373903001468 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903001469 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 373903001470 dimer interface [polypeptide binding]; other site 373903001471 conserved gate region; other site 373903001472 putative PBP binding loops; other site 373903001473 ABC-ATPase subunit interface; other site 373903001474 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903001475 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903001476 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 373903001477 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 373903001478 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 373903001479 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 373903001480 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 373903001481 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 373903001482 active site 373903001483 nucleotide binding site [chemical binding]; other site 373903001484 HIGH motif; other site 373903001485 KMSKS motif; other site 373903001486 citrate lyase subunit gamma; Provisional; Region: PRK13253 373903001487 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 373903001488 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 373903001489 Coenzyme A transferase; Region: CoA_trans; cl17247 373903001490 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 373903001491 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 373903001492 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 373903001493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 373903001494 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 373903001495 active site 373903001496 phosphorylation site [posttranslational modification] 373903001497 intermolecular recognition site; other site 373903001498 dimerization interface [polypeptide binding]; other site 373903001499 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 373903001500 DNA binding site [nucleotide binding] 373903001501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 373903001502 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 373903001503 dimer interface [polypeptide binding]; other site 373903001504 phosphorylation site [posttranslational modification] 373903001505 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 373903001506 ATP binding site [chemical binding]; other site 373903001507 Mg2+ binding site [ion binding]; other site 373903001508 G-X-G motif; other site 373903001509 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 373903001510 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 373903001511 Walker A/P-loop; other site 373903001512 ATP binding site [chemical binding]; other site 373903001513 Q-loop/lid; other site 373903001514 ABC transporter signature motif; other site 373903001515 Walker B; other site 373903001516 D-loop; other site 373903001517 H-loop/switch region; other site 373903001518 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 373903001519 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 373903001520 4Fe-4S binding domain; Region: Fer4; pfam00037 373903001521 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 373903001522 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 373903001523 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 373903001524 OsmC-like protein; Region: OsmC; pfam02566 373903001525 Cache domain; Region: Cache_1; pfam02743 373903001526 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 373903001527 dimerization interface [polypeptide binding]; other site 373903001528 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903001529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903001530 dimer interface [polypeptide binding]; other site 373903001531 putative CheW interface [polypeptide binding]; other site 373903001532 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 373903001533 Major Facilitator Superfamily; Region: MFS_1; pfam07690 373903001534 putative substrate translocation pore; other site 373903001535 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 373903001536 beta-galactosidase; Region: BGL; TIGR03356 373903001537 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 373903001538 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 373903001539 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903001540 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 373903001541 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903001542 Peptidase family M23; Region: Peptidase_M23; pfam01551 373903001543 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 373903001544 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 373903001545 metal-binding site [ion binding] 373903001546 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 373903001547 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 373903001548 metal-binding site [ion binding] 373903001549 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 373903001550 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 373903001551 motif II; other site 373903001552 DNA polymerase I; Provisional; Region: PRK05755 373903001553 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 373903001554 active site 373903001555 metal binding site 1 [ion binding]; metal-binding site 373903001556 putative 5' ssDNA interaction site; other site 373903001557 metal binding site 3; metal-binding site 373903001558 metal binding site 2 [ion binding]; metal-binding site 373903001559 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 373903001560 putative DNA binding site [nucleotide binding]; other site 373903001561 putative metal binding site [ion binding]; other site 373903001562 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 373903001563 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 373903001564 active site 373903001565 DNA binding site [nucleotide binding] 373903001566 catalytic site [active] 373903001567 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 373903001568 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 373903001569 DNA binding site [nucleotide binding] 373903001570 catalytic residue [active] 373903001571 H2TH interface [polypeptide binding]; other site 373903001572 putative catalytic residues [active] 373903001573 turnover-facilitating residue; other site 373903001574 intercalation triad [nucleotide binding]; other site 373903001575 8OG recognition residue [nucleotide binding]; other site 373903001576 putative reading head residues; other site 373903001577 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 373903001578 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 373903001579 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 373903001580 Domain of unknown function DUF; Region: DUF204; pfam02659 373903001581 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 373903001582 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 373903001583 CoA-binding site [chemical binding]; other site 373903001584 ATP-binding [chemical binding]; other site 373903001585 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 373903001586 active site 373903001587 dimer interfaces [polypeptide binding]; other site 373903001588 catalytic residues [active] 373903001589 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 373903001590 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 373903001591 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 373903001592 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 373903001593 dimer interface [polypeptide binding]; other site 373903001594 conserved gate region; other site 373903001595 putative PBP binding loops; other site 373903001596 ABC-ATPase subunit interface; other site 373903001597 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 373903001598 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 373903001599 dimer interface [polypeptide binding]; other site 373903001600 conserved gate region; other site 373903001601 putative PBP binding loops; other site 373903001602 ABC-ATPase subunit interface; other site 373903001603 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 373903001604 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 373903001605 Walker A/P-loop; other site 373903001606 ATP binding site [chemical binding]; other site 373903001607 Q-loop/lid; other site 373903001608 ABC transporter signature motif; other site 373903001609 Walker B; other site 373903001610 D-loop; other site 373903001611 H-loop/switch region; other site 373903001612 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 373903001613 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 373903001614 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 373903001615 Walker A/P-loop; other site 373903001616 ATP binding site [chemical binding]; other site 373903001617 Q-loop/lid; other site 373903001618 ABC transporter signature motif; other site 373903001619 Walker B; other site 373903001620 D-loop; other site 373903001621 H-loop/switch region; other site 373903001622 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 373903001623 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 373903001624 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 373903001625 Protein of unknown function (DUF523); Region: DUF523; pfam04463 373903001626 Uncharacterized conserved protein [Function unknown]; Region: COG3272 373903001627 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 373903001628 photolyase PhrII; Region: phr2; TIGR00591 373903001629 DNA photolyase; Region: DNA_photolyase; pfam00875 373903001630 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 373903001631 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 373903001632 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 373903001633 FeS/SAM binding site; other site 373903001634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903001635 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903001636 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 373903001637 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 373903001638 HlyD family secretion protein; Region: HlyD_3; pfam13437 373903001639 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 373903001640 FeoA domain; Region: FeoA; pfam04023 373903001641 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 373903001642 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 373903001643 G1 box; other site 373903001644 GTP/Mg2+ binding site [chemical binding]; other site 373903001645 Switch I region; other site 373903001646 G2 box; other site 373903001647 G3 box; other site 373903001648 Switch II region; other site 373903001649 G4 box; other site 373903001650 G5 box; other site 373903001651 Nucleoside recognition; Region: Gate; pfam07670 373903001652 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 373903001653 Nucleoside recognition; Region: Gate; pfam07670 373903001654 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 373903001655 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 373903001656 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 373903001657 Uncharacterized conserved protein [Function unknown]; Region: COG1633 373903001658 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 373903001659 dinuclear metal binding motif [ion binding]; other site 373903001660 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 373903001661 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 373903001662 active site 373903001663 motif I; other site 373903001664 motif II; other site 373903001665 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 373903001666 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 373903001667 DNA methylase; Region: N6_N4_Mtase; pfam01555 373903001668 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 373903001669 Uncharacterized membrane protein [Function unknown]; Region: COG3949 373903001670 Bacterial SH3 domain homologues; Region: SH3b; smart00287 373903001671 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 373903001672 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 373903001673 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 373903001674 BioY family; Region: BioY; pfam02632 373903001675 Cna protein B-type domain; Region: Cna_B_2; pfam13715 373903001676 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 373903001677 active site 373903001678 catalytic triad [active] 373903001679 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 373903001680 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 373903001681 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 373903001682 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_12; cd13142 373903001683 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 373903001684 S-adenosylmethionine binding site [chemical binding]; other site 373903001685 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 373903001686 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 373903001687 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 373903001688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 373903001689 metal binding site [ion binding]; metal-binding site 373903001690 active site 373903001691 I-site; other site 373903001692 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 373903001693 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903001694 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903001695 Mechanosensitive ion channel; Region: MS_channel; pfam00924 373903001696 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 373903001697 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 373903001698 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 373903001699 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 373903001700 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 373903001701 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 373903001702 dimer interface [polypeptide binding]; other site 373903001703 PYR/PP interface [polypeptide binding]; other site 373903001704 TPP binding site [chemical binding]; other site 373903001705 substrate binding site [chemical binding]; other site 373903001706 2-oxoacid:acceptor oxidoreductase, beta subunit, pyruvate/2-ketoisovalerate family; Region: PorB_KorB; TIGR02177 373903001707 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 373903001708 TPP-binding site [chemical binding]; other site 373903001709 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 373903001710 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 373903001711 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 373903001712 non-heme iron binding site [ion binding]; other site 373903001713 dimer interface [polypeptide binding]; other site 373903001714 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 373903001715 non-heme iron binding site [ion binding]; other site 373903001716 potential frameshift: common BLAST hit: gi|212640025|ref|YP_002316545.1| Phytoene dehydrogenase (Phytoene desaturase) 373903001717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 373903001718 phytoene desaturase; Region: crtI_fam; TIGR02734 373903001719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903001720 Coenzyme A binding pocket [chemical binding]; other site 373903001721 Predicted membrane protein [Function unknown]; Region: COG2323 373903001722 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 373903001723 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 373903001724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903001725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903001726 Coat F domain; Region: Coat_F; pfam07875 373903001727 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 373903001728 DNA-binding site [nucleotide binding]; DNA binding site 373903001729 RNA-binding motif; other site 373903001730 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 373903001731 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 373903001732 Na binding site [ion binding]; other site 373903001733 Predicted membrane protein [Function unknown]; Region: COG2323 373903001734 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 373903001735 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 373903001736 active site 373903001737 HIGH motif; other site 373903001738 KMSKS motif; other site 373903001739 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 373903001740 tRNA binding surface [nucleotide binding]; other site 373903001741 anticodon binding site; other site 373903001742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 373903001743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 373903001744 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 373903001745 putative dimerization interface [polypeptide binding]; other site 373903001746 Predicted membrane protein [Function unknown]; Region: COG2855 373903001747 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 373903001748 Major Facilitator Superfamily; Region: MFS_1; pfam07690 373903001749 putative substrate translocation pore; other site 373903001750 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 373903001751 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 373903001752 ATP binding site [chemical binding]; other site 373903001753 Mg++ binding site [ion binding]; other site 373903001754 motif III; other site 373903001755 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 373903001756 nucleotide binding region [chemical binding]; other site 373903001757 ATP-binding site [chemical binding]; other site 373903001758 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 373903001759 RNA binding site [nucleotide binding]; other site 373903001760 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 373903001761 DNA-binding site [nucleotide binding]; DNA binding site 373903001762 RNA-binding motif; other site 373903001763 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 373903001764 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 373903001765 DNA binding residues [nucleotide binding] 373903001766 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 373903001767 S-adenosylmethionine binding site [chemical binding]; other site 373903001768 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 373903001769 H+ Antiporter protein; Region: 2A0121; TIGR00900 373903001770 putative substrate translocation pore; other site 373903001771 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 373903001772 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 373903001773 active site 373903001774 Transcriptional regulator [Transcription]; Region: LytR; COG1316 373903001775 YtxC-like family; Region: YtxC; pfam08812 373903001776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 373903001777 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 373903001778 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 373903001779 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 373903001780 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 373903001781 active site 373903001782 dimer interface [polypeptide binding]; other site 373903001783 motif 1; other site 373903001784 motif 2; other site 373903001785 motif 3; other site 373903001786 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 373903001787 anticodon binding site; other site 373903001788 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 373903001789 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 373903001790 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 373903001791 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 373903001792 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 373903001793 23S rRNA binding site [nucleotide binding]; other site 373903001794 L21 binding site [polypeptide binding]; other site 373903001795 L13 binding site [polypeptide binding]; other site 373903001796 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 373903001797 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 373903001798 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 373903001799 T-box leader 373903001800 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 373903001801 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 373903001802 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 373903001803 dimer interface [polypeptide binding]; other site 373903001804 motif 1; other site 373903001805 active site 373903001806 motif 2; other site 373903001807 motif 3; other site 373903001808 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 373903001809 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 373903001810 putative tRNA-binding site [nucleotide binding]; other site 373903001811 B3/4 domain; Region: B3_4; pfam03483 373903001812 tRNA synthetase B5 domain; Region: B5; pfam03484 373903001813 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 373903001814 dimer interface [polypeptide binding]; other site 373903001815 motif 1; other site 373903001816 motif 3; other site 373903001817 motif 2; other site 373903001818 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 373903001819 Cell division protein ZapA; Region: ZapA; pfam05164 373903001820 Colicin V production protein; Region: Colicin_V; pfam02674 373903001821 hypothetical protein; Provisional; Region: PRK08609 373903001822 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 373903001823 active site 373903001824 primer binding site [nucleotide binding]; other site 373903001825 NTP binding site [chemical binding]; other site 373903001826 metal binding triad [ion binding]; metal-binding site 373903001827 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 373903001828 active site 373903001829 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 373903001830 MutS domain III; Region: MutS_III; pfam05192 373903001831 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 373903001832 Walker A/P-loop; other site 373903001833 ATP binding site [chemical binding]; other site 373903001834 Q-loop/lid; other site 373903001835 ABC transporter signature motif; other site 373903001836 Walker B; other site 373903001837 D-loop; other site 373903001838 H-loop/switch region; other site 373903001839 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 373903001840 Smr domain; Region: Smr; pfam01713 373903001841 Transglycosylase; Region: Transgly; pfam00912 373903001842 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 373903001843 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 373903001844 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 373903001845 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 373903001846 active site 373903001847 HIGH motif; other site 373903001848 dimer interface [polypeptide binding]; other site 373903001849 KMSKS motif; other site 373903001850 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 373903001851 RNA binding surface [nucleotide binding]; other site 373903001852 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 373903001853 PRC-barrel domain; Region: PRC; pfam05239 373903001854 PRC-barrel domain; Region: PRC; pfam05239 373903001855 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 373903001856 Domain of unknown function DUF20; Region: UPF0118; pfam01594 373903001857 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 373903001858 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 373903001859 motif 1; other site 373903001860 active site 373903001861 motif 2; other site 373903001862 motif 3; other site 373903001863 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 373903001864 DHHA1 domain; Region: DHHA1; pfam02272 373903001865 hypothetical protein; Provisional; Region: PRK05473 373903001866 Cell division protein FtsA; Region: FtsA; smart00842 373903001867 Cell division protein FtsA; Region: FtsA; pfam14450 373903001868 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 373903001869 YceG-like family; Region: YceG; pfam02618 373903001870 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 373903001871 dimerization interface [polypeptide binding]; other site 373903001872 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 373903001873 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 373903001874 S-adenosylmethionine binding site [chemical binding]; other site 373903001875 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 373903001876 Peptidase family U32; Region: Peptidase_U32; pfam01136 373903001877 sporulation sigma factor SigK; Reviewed; Region: PRK05803 373903001878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903001879 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 373903001880 DNA binding residues [nucleotide binding] 373903001881 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 373903001882 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 373903001883 motif II; other site 373903001884 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 373903001885 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903001886 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903001887 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 373903001888 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 373903001889 metal binding site 2 [ion binding]; metal-binding site 373903001890 putative DNA binding helix; other site 373903001891 metal binding site 1 [ion binding]; metal-binding site 373903001892 dimer interface [polypeptide binding]; other site 373903001893 structural Zn2+ binding site [ion binding]; other site 373903001894 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 373903001895 G1 box; other site 373903001896 GTP/Mg2+ binding site [chemical binding]; other site 373903001897 Switch I region; other site 373903001898 G2 box; other site 373903001899 G3 box; other site 373903001900 Switch II region; other site 373903001901 G4 box; other site 373903001902 G5 box; other site 373903001903 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 373903001904 Nucleoside recognition; Region: Gate; pfam07670 373903001905 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 373903001906 Nucleoside recognition; Region: Gate; pfam07670 373903001907 FeoA domain; Region: FeoA; pfam04023 373903001908 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 373903001909 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 373903001910 ligand binding site [chemical binding]; other site 373903001911 flexible hinge region; other site 373903001912 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 373903001913 putative switch regulator; other site 373903001914 non-specific DNA interactions [nucleotide binding]; other site 373903001915 DNA binding site [nucleotide binding] 373903001916 sequence specific DNA binding site [nucleotide binding]; other site 373903001917 putative cAMP binding site [chemical binding]; other site 373903001918 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 373903001919 EamA-like transporter family; Region: EamA; pfam00892 373903001920 EamA-like transporter family; Region: EamA; pfam00892 373903001921 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 373903001922 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 373903001923 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 373903001924 shikimate binding site; other site 373903001925 NAD(P) binding site [chemical binding]; other site 373903001926 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 373903001927 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 373903001928 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 373903001929 Walker A motif; other site 373903001930 ATP binding site [chemical binding]; other site 373903001931 Walker B motif; other site 373903001932 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 373903001933 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 373903001934 Walker A motif; other site 373903001935 ATP binding site [chemical binding]; other site 373903001936 Walker B motif; other site 373903001937 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 373903001938 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 373903001939 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 373903001940 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 373903001941 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 373903001942 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 373903001943 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 373903001944 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 373903001945 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 373903001946 Cell division protein FtsA; Region: FtsA; cl17206 373903001947 Competence protein A; Region: Competence_A; pfam11104 373903001948 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903001949 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 373903001950 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 373903001951 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 373903001952 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 373903001953 type II secretion system protein D; Region: type_II_gspD; TIGR02517 373903001954 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 373903001955 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903001956 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903001957 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 373903001958 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 373903001959 Tetramer interface [polypeptide binding]; other site 373903001960 active site 373903001961 FMN-binding site [chemical binding]; other site 373903001962 shikimate kinase; Reviewed; Region: aroK; PRK00131 373903001963 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 373903001964 ADP binding site [chemical binding]; other site 373903001965 magnesium binding site [ion binding]; other site 373903001966 putative shikimate binding site; other site 373903001967 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 373903001968 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 373903001969 active site 373903001970 dimer interface [polypeptide binding]; other site 373903001971 metal binding site [ion binding]; metal-binding site 373903001972 Dehydroquinase class II; Region: DHquinase_II; pfam01220 373903001973 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 373903001974 trimer interface [polypeptide binding]; other site 373903001975 active site 373903001976 dimer interface [polypeptide binding]; other site 373903001977 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 373903001978 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 373903001979 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 373903001980 active site 373903001981 elongation factor P; Validated; Region: PRK00529 373903001982 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 373903001983 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 373903001984 RNA binding site [nucleotide binding]; other site 373903001985 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 373903001986 RNA binding site [nucleotide binding]; other site 373903001987 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 373903001988 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 373903001989 NTPase; Region: NTPase_1; cl17478 373903001990 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; pfam09548 373903001991 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 373903001992 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 373903001993 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 373903001994 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 373903001995 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 373903001996 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 373903001997 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 373903001998 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 373903001999 carboxyltransferase (CT) interaction site; other site 373903002000 biotinylation site [posttranslational modification]; other site 373903002001 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 373903002002 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 373903002003 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 373903002004 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 373903002005 Asp23 family; Region: Asp23; pfam03780 373903002006 Asp23 family; Region: Asp23; pfam03780 373903002007 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 373903002008 putative RNA binding site [nucleotide binding]; other site 373903002009 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 373903002010 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 373903002011 putative dimer interface [polypeptide binding]; other site 373903002012 [2Fe-2S] cluster binding site [ion binding]; other site 373903002013 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 373903002014 dimer interface [polypeptide binding]; other site 373903002015 [2Fe-2S] cluster binding site [ion binding]; other site 373903002016 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 373903002017 SLBB domain; Region: SLBB; pfam10531 373903002018 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 373903002019 4Fe-4S binding domain; Region: Fer4; pfam00037 373903002020 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903002021 4Fe-4S binding domain; Region: Fer4; pfam00037 373903002022 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 373903002023 catalytic loop [active] 373903002024 iron binding site [ion binding]; other site 373903002025 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 373903002026 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 373903002027 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 373903002028 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 373903002029 FOG: CBS domain [General function prediction only]; Region: COG0517 373903002030 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_9; cd04622 373903002031 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 373903002032 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 373903002033 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 373903002034 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 373903002035 active site 373903002036 metal binding site [ion binding]; metal-binding site 373903002037 DNA binding site [nucleotide binding] 373903002038 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 373903002039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903002040 Walker A/P-loop; other site 373903002041 ATP binding site [chemical binding]; other site 373903002042 COG4 transport protein; Region: COG4; cl07072 373903002043 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 373903002044 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002045 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002046 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002047 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 373903002048 active site 373903002049 catalytic triad [active] 373903002050 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002051 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002052 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903002053 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002054 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002055 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002056 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002057 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903002058 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 373903002059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 373903002060 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903002061 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 373903002062 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 373903002063 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002064 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903002065 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002066 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002067 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 373903002068 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 373903002069 NodB motif; other site 373903002070 active site 373903002071 catalytic site [active] 373903002072 metal binding site [ion binding]; metal-binding site 373903002073 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 373903002074 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 373903002075 FAD binding pocket [chemical binding]; other site 373903002076 FAD binding motif [chemical binding]; other site 373903002077 phosphate binding motif [ion binding]; other site 373903002078 beta-alpha-beta structure motif; other site 373903002079 NAD binding pocket [chemical binding]; other site 373903002080 Iron coordination center [ion binding]; other site 373903002081 putative oxidoreductase; Provisional; Region: PRK12831 373903002082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 373903002083 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 373903002084 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 373903002085 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 373903002086 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 373903002087 homodimer interface [polypeptide binding]; other site 373903002088 NADP binding site [chemical binding]; other site 373903002089 substrate binding site [chemical binding]; other site 373903002090 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 373903002091 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 373903002092 generic binding surface II; other site 373903002093 generic binding surface I; other site 373903002094 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 373903002095 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 373903002096 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 373903002097 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 373903002098 substrate binding pocket [chemical binding]; other site 373903002099 chain length determination region; other site 373903002100 substrate-Mg2+ binding site; other site 373903002101 catalytic residues [active] 373903002102 aspartate-rich region 1; other site 373903002103 active site lid residues [active] 373903002104 aspartate-rich region 2; other site 373903002105 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 373903002106 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 373903002107 TPP-binding site; other site 373903002108 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 373903002109 PYR/PP interface [polypeptide binding]; other site 373903002110 dimer interface [polypeptide binding]; other site 373903002111 TPP binding site [chemical binding]; other site 373903002112 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 373903002113 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 373903002114 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 373903002115 RNA binding surface [nucleotide binding]; other site 373903002116 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 373903002117 S-adenosylmethionine binding site [chemical binding]; other site 373903002118 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 373903002119 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 373903002120 Arginine repressor [Transcription]; Region: ArgR; COG1438 373903002121 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 373903002122 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 373903002123 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 373903002124 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 373903002125 Walker A/P-loop; other site 373903002126 ATP binding site [chemical binding]; other site 373903002127 Q-loop/lid; other site 373903002128 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 373903002129 ABC transporter signature motif; other site 373903002130 Walker B; other site 373903002131 D-loop; other site 373903002132 H-loop/switch region; other site 373903002133 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 373903002134 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 373903002135 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 373903002136 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 373903002137 active site 373903002138 phosphorylation site [posttranslational modification] 373903002139 intermolecular recognition site; other site 373903002140 dimerization interface [polypeptide binding]; other site 373903002141 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 373903002142 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 373903002143 Thiamine pyrophosphokinase; Region: TPK; cl08415 373903002144 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 373903002145 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 373903002146 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 373903002147 Ligand binding site; other site 373903002148 Putative Catalytic site; other site 373903002149 DXD motif; other site 373903002150 Predicted transcriptional regulators [Transcription]; Region: COG1378 373903002151 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 373903002152 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 373903002153 C-terminal domain interface [polypeptide binding]; other site 373903002154 sugar binding site [chemical binding]; other site 373903002155 arginine deiminase; Provisional; Region: PRK01388 373903002156 ornithine carbamoyltransferase; Validated; Region: PRK02102 373903002157 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 373903002158 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 373903002159 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 373903002160 carbamate kinase; Reviewed; Region: PRK12686 373903002161 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 373903002162 putative substrate binding site [chemical binding]; other site 373903002163 nucleotide binding site [chemical binding]; other site 373903002164 nucleotide binding site [chemical binding]; other site 373903002165 homodimer interface [polypeptide binding]; other site 373903002166 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903002167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903002168 dimer interface [polypeptide binding]; other site 373903002169 putative CheW interface [polypeptide binding]; other site 373903002170 Cache domain; Region: Cache_1; pfam02743 373903002171 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 373903002172 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 373903002173 putative active site [active] 373903002174 heme pocket [chemical binding]; other site 373903002175 PAS domain; Region: PAS; smart00091 373903002176 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 373903002177 Walker A motif; other site 373903002178 ATP binding site [chemical binding]; other site 373903002179 Walker B motif; other site 373903002180 arginine finger; other site 373903002181 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 373903002182 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 373903002183 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 373903002184 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 373903002185 NAD binding site [chemical binding]; other site 373903002186 Phe binding site; other site 373903002187 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 373903002188 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 373903002189 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 373903002190 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 373903002191 NAD binding site [chemical binding]; other site 373903002192 Phe binding site; other site 373903002193 butyrate kinase; Provisional; Region: PRK03011 373903002194 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903002195 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 373903002196 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 373903002197 dimer interface [polypeptide binding]; other site 373903002198 PYR/PP interface [polypeptide binding]; other site 373903002199 TPP binding site [chemical binding]; other site 373903002200 substrate binding site [chemical binding]; other site 373903002201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 373903002202 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 373903002203 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 373903002204 TPP-binding site [chemical binding]; other site 373903002205 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 373903002206 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 373903002207 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 373903002208 peptidase T-like protein; Region: PepT-like; TIGR01883 373903002209 metal binding site [ion binding]; metal-binding site 373903002210 putative dimer interface [polypeptide binding]; other site 373903002211 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 373903002212 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 373903002213 dimer interface [polypeptide binding]; other site 373903002214 ADP-ribose binding site [chemical binding]; other site 373903002215 active site 373903002216 nudix motif; other site 373903002217 metal binding site [ion binding]; metal-binding site 373903002218 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 373903002219 PHP-associated; Region: PHP_C; pfam13263 373903002220 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 373903002221 DNA binding site [nucleotide binding] 373903002222 Integral membrane protein DUF95; Region: DUF95; cl00572 373903002223 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 373903002224 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 373903002225 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 373903002226 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 373903002227 glycogen synthase; Provisional; Region: glgA; PRK00654 373903002228 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 373903002229 ADP-binding pocket [chemical binding]; other site 373903002230 homodimer interface [polypeptide binding]; other site 373903002231 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 373903002232 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 373903002233 ligand binding site; other site 373903002234 oligomer interface; other site 373903002235 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 373903002236 dimer interface [polypeptide binding]; other site 373903002237 N-terminal domain interface [polypeptide binding]; other site 373903002238 sulfate 1 binding site; other site 373903002239 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 373903002240 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 373903002241 ligand binding site; other site 373903002242 oligomer interface; other site 373903002243 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 373903002244 dimer interface [polypeptide binding]; other site 373903002245 N-terminal domain interface [polypeptide binding]; other site 373903002246 sulfate 1 binding site; other site 373903002247 glycogen branching enzyme; Provisional; Region: PRK12313 373903002248 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 373903002249 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 373903002250 active site 373903002251 catalytic site [active] 373903002252 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 373903002253 glycogen synthase; Provisional; Region: glgA; PRK00654 373903002254 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 373903002255 ADP-binding pocket [chemical binding]; other site 373903002256 homodimer interface [polypeptide binding]; other site 373903002257 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 373903002258 phosphopentomutase; Provisional; Region: PRK05362 373903002259 purine nucleoside phosphorylase; Provisional; Region: PRK08202 373903002260 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 373903002261 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 373903002262 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 373903002263 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 373903002264 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 373903002265 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 373903002266 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 373903002267 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 373903002268 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 373903002269 active site 373903002270 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 373903002271 anti sigma factor interaction site; other site 373903002272 regulatory phosphorylation site [posttranslational modification]; other site 373903002273 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 373903002274 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 373903002275 ATP binding site [chemical binding]; other site 373903002276 Mg2+ binding site [ion binding]; other site 373903002277 G-X-G motif; other site 373903002278 sporulation sigma factor SigF; Validated; Region: PRK05572 373903002279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903002280 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 373903002281 DNA binding residues [nucleotide binding] 373903002282 Dodecin; Region: Dodecin; pfam07311 373903002283 SpoVA protein; Region: SpoVA; cl04298 373903002284 stage V sporulation protein AD; Validated; Region: PRK08304 373903002285 stage V sporulation protein AD; Provisional; Region: PRK12404 373903002286 SpoVA protein; Region: SpoVA; cl04298 373903002287 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 373903002288 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 373903002289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 373903002290 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 373903002291 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 373903002292 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903002293 diaminopimelate decarboxylase; Region: lysA; TIGR01048 373903002294 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 373903002295 active site 373903002296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 373903002297 substrate binding site [chemical binding]; other site 373903002298 catalytic residues [active] 373903002299 dimer interface [polypeptide binding]; other site 373903002300 DHH family; Region: DHH; pfam01368 373903002301 FOG: CBS domain [General function prediction only]; Region: COG0517 373903002302 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 373903002303 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 373903002304 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 373903002305 active site 373903002306 NTP binding site [chemical binding]; other site 373903002307 metal binding triad [ion binding]; metal-binding site 373903002308 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 373903002309 Peptidase family M50; Region: Peptidase_M50; pfam02163 373903002310 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 373903002311 active site 373903002312 putative substrate binding region [chemical binding]; other site 373903002313 ScpA/B protein; Region: ScpA_ScpB; cl00598 373903002314 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 373903002315 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 373903002316 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 373903002317 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 373903002318 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 373903002319 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 373903002320 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 373903002321 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 373903002322 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 373903002323 RNA binding surface [nucleotide binding]; other site 373903002324 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 373903002325 active site 373903002326 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 373903002327 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 373903002328 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 373903002329 Walker A/P-loop; other site 373903002330 ATP binding site [chemical binding]; other site 373903002331 Q-loop/lid; other site 373903002332 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 373903002333 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 373903002334 ABC transporter signature motif; other site 373903002335 Walker B; other site 373903002336 D-loop; other site 373903002337 H-loop/switch region; other site 373903002338 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 373903002339 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 373903002340 P loop; other site 373903002341 GTP binding site [chemical binding]; other site 373903002342 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 373903002343 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 373903002344 DNA binding residues [nucleotide binding] 373903002345 signal recognition particle protein; Provisional; Region: PRK10867 373903002346 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 373903002347 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 373903002348 P loop; other site 373903002349 GTP binding site [chemical binding]; other site 373903002350 Signal peptide binding domain; Region: SRP_SPB; pfam02978 373903002351 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 373903002352 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 373903002353 hypothetical protein; Provisional; Region: PRK00468 373903002354 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 373903002355 RimM N-terminal domain; Region: RimM; pfam01782 373903002356 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 373903002357 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 373903002358 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 373903002359 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 373903002360 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 373903002361 GTP/Mg2+ binding site [chemical binding]; other site 373903002362 G4 box; other site 373903002363 G5 box; other site 373903002364 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 373903002365 G1 box; other site 373903002366 Switch I region; other site 373903002367 G2 box; other site 373903002368 G3 box; other site 373903002369 Switch II region; other site 373903002370 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 373903002371 RNA/DNA hybrid binding site [nucleotide binding]; other site 373903002372 active site 373903002373 QueT transporter; Region: QueT; pfam06177 373903002374 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 373903002375 hypothetical protein; Reviewed; Region: PRK12497 373903002376 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 373903002377 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 373903002378 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 373903002379 Walker A motif; other site 373903002380 ATP binding site [chemical binding]; other site 373903002381 Walker B motif; other site 373903002382 arginine finger; other site 373903002383 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 373903002384 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 373903002385 PAS domain; Region: PAS_9; pfam13426 373903002386 putative active site [active] 373903002387 heme pocket [chemical binding]; other site 373903002388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 373903002389 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 373903002390 dimer interface [polypeptide binding]; other site 373903002391 phosphorylation site [posttranslational modification] 373903002392 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 373903002393 ATP binding site [chemical binding]; other site 373903002394 Mg2+ binding site [ion binding]; other site 373903002395 G-X-G motif; other site 373903002396 zinc transporter ZupT; Provisional; Region: PRK04201 373903002397 ZIP Zinc transporter; Region: Zip; pfam02535 373903002398 HEAT repeats; Region: HEAT_2; pfam13646 373903002399 HEAT repeats; Region: HEAT_2; pfam13646 373903002400 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 373903002401 protein binding surface [polypeptide binding]; other site 373903002402 Predicted amidohydrolase [General function prediction only]; Region: COG0388 373903002403 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 373903002404 active site 373903002405 catalytic triad [active] 373903002406 dimer interface [polypeptide binding]; other site 373903002407 Predicted amidohydrolase [General function prediction only]; Region: COG0388 373903002408 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 373903002409 putative active site [active] 373903002410 catalytic triad [active] 373903002411 putative dimer interface [polypeptide binding]; other site 373903002412 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 373903002413 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 373903002414 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 373903002415 sequence-specific DNA binding site [nucleotide binding]; other site 373903002416 salt bridge; other site 373903002417 B12 binding domain; Region: B12-binding_2; pfam02607 373903002418 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 373903002419 B12 binding domain; Region: B12-binding; pfam02310 373903002420 B12 binding site [chemical binding]; other site 373903002421 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 373903002422 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 373903002423 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 373903002424 active site 373903002425 catalytic tetrad [active] 373903002426 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 373903002427 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 373903002428 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 373903002429 DNA protecting protein DprA; Region: dprA; TIGR00732 373903002430 DNA topoisomerase I; Validated; Region: PRK05582 373903002431 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 373903002432 active site 373903002433 interdomain interaction site; other site 373903002434 putative metal-binding site [ion binding]; other site 373903002435 nucleotide binding site [chemical binding]; other site 373903002436 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 373903002437 domain I; other site 373903002438 DNA binding groove [nucleotide binding] 373903002439 phosphate binding site [ion binding]; other site 373903002440 domain II; other site 373903002441 domain III; other site 373903002442 nucleotide binding site [chemical binding]; other site 373903002443 catalytic site [active] 373903002444 domain IV; other site 373903002445 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 373903002446 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 373903002447 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 373903002448 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 373903002449 Glucose inhibited division protein A; Region: GIDA; pfam01134 373903002450 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 373903002451 active site 373903002452 HslU subunit interaction site [polypeptide binding]; other site 373903002453 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 373903002454 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 373903002455 Walker A motif; other site 373903002456 ATP binding site [chemical binding]; other site 373903002457 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 373903002458 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 373903002459 transcriptional repressor CodY; Validated; Region: PRK04158 373903002460 CodY GAF-like domain; Region: CodY; pfam06018 373903002461 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 373903002462 Response regulator receiver domain; Region: Response_reg; pfam00072 373903002463 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 373903002464 active site 373903002465 phosphorylation site [posttranslational modification] 373903002466 intermolecular recognition site; other site 373903002467 dimerization interface [polypeptide binding]; other site 373903002468 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 373903002469 putative binding surface; other site 373903002470 active site 373903002471 P2 response regulator binding domain; Region: P2; pfam07194 373903002472 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 373903002473 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 373903002474 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 373903002475 ATP binding site [chemical binding]; other site 373903002476 Mg2+ binding site [ion binding]; other site 373903002477 G-X-G motif; other site 373903002478 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 373903002479 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 373903002480 putative CheA interaction surface; other site 373903002481 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 373903002482 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 373903002483 CheC-like family; Region: CheC; pfam04509 373903002484 CheC-like family; Region: CheC; pfam04509 373903002485 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488 373903002486 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 373903002487 rRNA interaction site [nucleotide binding]; other site 373903002488 S8 interaction site; other site 373903002489 putative laminin-1 binding site; other site 373903002490 elongation factor Ts; Provisional; Region: tsf; PRK09377 373903002491 UBA/TS-N domain; Region: UBA; pfam00627 373903002492 Elongation factor TS; Region: EF_TS; pfam00889 373903002493 Elongation factor TS; Region: EF_TS; pfam00889 373903002494 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 373903002495 putative nucleotide binding site [chemical binding]; other site 373903002496 uridine monophosphate binding site [chemical binding]; other site 373903002497 homohexameric interface [polypeptide binding]; other site 373903002498 ribosome recycling factor; Reviewed; Region: frr; PRK00083 373903002499 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 373903002500 hinge region; other site 373903002501 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 373903002502 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 373903002503 catalytic residue [active] 373903002504 putative FPP diphosphate binding site; other site 373903002505 putative FPP binding hydrophobic cleft; other site 373903002506 dimer interface [polypeptide binding]; other site 373903002507 putative IPP diphosphate binding site; other site 373903002508 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 373903002509 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 373903002510 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 373903002511 Domain of unknown function DUF20; Region: UPF0118; pfam01594 373903002512 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 373903002513 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 373903002514 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 373903002515 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 373903002516 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 373903002517 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 373903002518 active site 373903002519 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 373903002520 protein binding site [polypeptide binding]; other site 373903002521 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 373903002522 putative substrate binding region [chemical binding]; other site 373903002523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903002524 Zn2+ binding site [ion binding]; other site 373903002525 Mg2+ binding site [ion binding]; other site 373903002526 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 373903002527 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 373903002528 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 373903002529 prolyl-tRNA synthetase; Provisional; Region: PRK09194 373903002530 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 373903002531 dimer interface [polypeptide binding]; other site 373903002532 motif 1; other site 373903002533 active site 373903002534 motif 2; other site 373903002535 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 373903002536 putative deacylase active site [active] 373903002537 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 373903002538 active site 373903002539 motif 3; other site 373903002540 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 373903002541 anticodon binding site; other site 373903002542 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 373903002543 Ligand binding site; other site 373903002544 DXD motif; other site 373903002545 Putative Catalytic site; other site 373903002546 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 373903002547 MgtC family; Region: MgtC; pfam02308 373903002548 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 373903002549 DNA polymerase III PolC; Validated; Region: polC; PRK00448 373903002550 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 373903002551 generic binding surface II; other site 373903002552 generic binding surface I; other site 373903002553 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 373903002554 active site 373903002555 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 373903002556 active site 373903002557 catalytic site [active] 373903002558 substrate binding site [chemical binding]; other site 373903002559 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 373903002560 ribosome maturation protein RimP; Reviewed; Region: PRK00092 373903002561 Sm and related proteins; Region: Sm_like; cl00259 373903002562 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 373903002563 putative oligomer interface [polypeptide binding]; other site 373903002564 putative RNA binding site [nucleotide binding]; other site 373903002565 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 373903002566 NusA N-terminal domain; Region: NusA_N; pfam08529 373903002567 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 373903002568 RNA binding site [nucleotide binding]; other site 373903002569 homodimer interface [polypeptide binding]; other site 373903002570 NusA-like KH domain; Region: KH_5; pfam13184 373903002571 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 373903002572 G-X-X-G motif; other site 373903002573 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 373903002574 putative RNA binding cleft [nucleotide binding]; other site 373903002575 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 373903002576 translation initiation factor IF-2; Region: IF-2; TIGR00487 373903002577 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 373903002578 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 373903002579 G1 box; other site 373903002580 putative GEF interaction site [polypeptide binding]; other site 373903002581 GTP/Mg2+ binding site [chemical binding]; other site 373903002582 Switch I region; other site 373903002583 G2 box; other site 373903002584 G3 box; other site 373903002585 Switch II region; other site 373903002586 G4 box; other site 373903002587 G5 box; other site 373903002588 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 373903002589 Translation-initiation factor 2; Region: IF-2; pfam11987 373903002590 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 373903002591 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 373903002592 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 373903002593 DHH family; Region: DHH; pfam01368 373903002594 DHHA1 domain; Region: DHHA1; pfam02272 373903002595 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 373903002596 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 373903002597 RNA binding site [nucleotide binding]; other site 373903002598 active site 373903002599 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 373903002600 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 373903002601 active site 373903002602 Riboflavin kinase; Region: Flavokinase; pfam01687 373903002603 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 373903002604 16S/18S rRNA binding site [nucleotide binding]; other site 373903002605 S13e-L30e interaction site [polypeptide binding]; other site 373903002606 25S rRNA binding site [nucleotide binding]; other site 373903002607 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 373903002608 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 373903002609 RNase E interface [polypeptide binding]; other site 373903002610 trimer interface [polypeptide binding]; other site 373903002611 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 373903002612 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 373903002613 RNase E interface [polypeptide binding]; other site 373903002614 trimer interface [polypeptide binding]; other site 373903002615 active site 373903002616 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 373903002617 putative nucleic acid binding region [nucleotide binding]; other site 373903002618 G-X-X-G motif; other site 373903002619 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 373903002620 RNA binding site [nucleotide binding]; other site 373903002621 domain interface; other site 373903002622 endonuclease IV; Provisional; Region: PRK01060 373903002623 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 373903002624 AP (apurinic/apyrimidinic) site pocket; other site 373903002625 DNA interaction; other site 373903002626 Metal-binding active site; metal-binding site 373903002627 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 373903002628 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 373903002629 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 373903002630 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 373903002631 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002632 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903002633 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903002634 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903002635 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 373903002636 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 373903002637 active site 373903002638 metal binding site [ion binding]; metal-binding site 373903002639 Sporulation and spore germination; Region: Germane; pfam10646 373903002640 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 373903002641 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 373903002642 NodB motif; other site 373903002643 active site 373903002644 catalytic site [active] 373903002645 metal binding site [ion binding]; metal-binding site 373903002646 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 373903002647 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 373903002648 NodB motif; other site 373903002649 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 373903002650 trimer interface [polypeptide binding]; other site 373903002651 active site 373903002652 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 373903002653 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 373903002654 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 373903002655 homodimer interface [polypeptide binding]; other site 373903002656 substrate-cofactor binding pocket; other site 373903002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903002658 catalytic residue [active] 373903002659 homoserine kinase; Provisional; Region: PRK01212 373903002660 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 373903002661 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 373903002662 homoserine dehydrogenase; Provisional; Region: PRK06349 373903002663 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 373903002664 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 373903002665 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 373903002666 threonine synthase; Reviewed; Region: PRK06721 373903002667 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 373903002668 homodimer interface [polypeptide binding]; other site 373903002669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903002670 catalytic residue [active] 373903002671 aspartate kinase; Reviewed; Region: PRK06635 373903002672 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 373903002673 putative catalytic residues [active] 373903002674 putative nucleotide binding site [chemical binding]; other site 373903002675 putative aspartate binding site [chemical binding]; other site 373903002676 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 373903002677 putative allosteric regulatory site; other site 373903002678 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 373903002679 putative allosteric regulatory residue; other site 373903002680 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 373903002681 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 373903002682 active site 373903002683 catalytic residues [active] 373903002684 metal binding site [ion binding]; metal-binding site 373903002685 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 373903002686 tartrate dehydrogenase; Region: TTC; TIGR02089 373903002687 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 373903002688 E-class dimer interface [polypeptide binding]; other site 373903002689 P-class dimer interface [polypeptide binding]; other site 373903002690 active site 373903002691 Cu2+ binding site [ion binding]; other site 373903002692 Zn2+ binding site [ion binding]; other site 373903002693 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 373903002694 putative ADP-ribose binding site [chemical binding]; other site 373903002695 putative active site [active] 373903002696 glycerol kinase; Provisional; Region: glpK; PRK00047 373903002697 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 373903002698 N- and C-terminal domain interface [polypeptide binding]; other site 373903002699 active site 373903002700 MgATP binding site [chemical binding]; other site 373903002701 catalytic site [active] 373903002702 metal binding site [ion binding]; metal-binding site 373903002703 glycerol binding site [chemical binding]; other site 373903002704 homotetramer interface [polypeptide binding]; other site 373903002705 homodimer interface [polypeptide binding]; other site 373903002706 FBP binding site [chemical binding]; other site 373903002707 protein IIAGlc interface [polypeptide binding]; other site 373903002708 Predicted dehydrogenase [General function prediction only]; Region: COG0579 373903002709 hydroxyglutarate oxidase; Provisional; Region: PRK11728 373903002710 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 373903002711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 373903002712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 373903002713 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 373903002714 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 373903002715 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 373903002716 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 373903002717 putative dimer interface [polypeptide binding]; other site 373903002718 putative anticodon binding site; other site 373903002719 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 373903002720 homodimer interface [polypeptide binding]; other site 373903002721 motif 1; other site 373903002722 motif 2; other site 373903002723 active site 373903002724 motif 3; other site 373903002725 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 373903002726 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 373903002727 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 373903002728 DNA binding site [nucleotide binding] 373903002729 active site 373903002730 oligoendopeptidase F; Region: pepF; TIGR00181 373903002731 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 373903002732 active site 373903002733 Zn binding site [ion binding]; other site 373903002734 Esterase/lipase [General function prediction only]; Region: COG1647 373903002735 dipeptidase PepV; Reviewed; Region: PRK07318 373903002736 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 373903002737 active site 373903002738 metal binding site [ion binding]; metal-binding site 373903002739 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 373903002740 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 373903002741 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 373903002742 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 373903002743 active site 373903002744 HIGH motif; other site 373903002745 KMSK motif region; other site 373903002746 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 373903002747 tRNA binding surface [nucleotide binding]; other site 373903002748 anticodon binding site; other site 373903002749 T-box leader 373903002750 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 373903002751 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 373903002752 PYR/PP interface [polypeptide binding]; other site 373903002753 dimer interface [polypeptide binding]; other site 373903002754 tetramer interface [polypeptide binding]; other site 373903002755 TPP binding site [chemical binding]; other site 373903002756 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 373903002757 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 373903002758 TPP-binding site [chemical binding]; other site 373903002759 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 373903002760 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 373903002761 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 373903002762 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 373903002763 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 373903002764 active site 373903002765 metal binding site [ion binding]; metal-binding site 373903002766 homotetramer interface [polypeptide binding]; other site 373903002767 Integral membrane protein DUF92; Region: DUF92; pfam01940 373903002768 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 373903002769 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 373903002770 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 373903002771 active site 373903002772 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_28; cd04687 373903002773 nudix motif; other site 373903002774 VanZ like family; Region: VanZ; cl01971 373903002775 Predicted membrane protein [Function unknown]; Region: COG4684 373903002776 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 373903002777 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 373903002778 Rhomboid family; Region: Rhomboid; cl11446 373903002779 Predicted nucleotide kinase [Nucleotide transport and metabolism]; Region: COG4088 373903002780 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 373903002781 YolD-like protein; Region: YolD; pfam08863 373903002782 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 373903002783 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 373903002784 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 373903002785 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903002786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903002787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903002788 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 373903002789 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 373903002790 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 373903002791 4Fe-4S binding domain; Region: Fer4_5; pfam12801 373903002792 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903002793 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903002794 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 373903002795 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 373903002796 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 373903002797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 373903002798 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 373903002799 NAD(P) binding site [chemical binding]; other site 373903002800 active site 373903002801 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 373903002802 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 373903002803 catalytic motif [active] 373903002804 Zn binding site [ion binding]; other site 373903002805 RibD C-terminal domain; Region: RibD_C; cl17279 373903002806 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 373903002807 Lumazine binding domain; Region: Lum_binding; pfam00677 373903002808 Lumazine binding domain; Region: Lum_binding; pfam00677 373903002809 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 373903002810 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 373903002811 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 373903002812 dimerization interface [polypeptide binding]; other site 373903002813 active site 373903002814 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 373903002815 homopentamer interface [polypeptide binding]; other site 373903002816 active site 373903002817 ABC transporter; Region: ABC_tran; pfam00005 373903002818 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903002819 Q-loop/lid; other site 373903002820 ABC transporter signature motif; other site 373903002821 Walker B; other site 373903002822 D-loop; other site 373903002823 H-loop/switch region; other site 373903002824 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903002825 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903002826 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 373903002827 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 373903002828 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 373903002829 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 373903002830 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 373903002831 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 373903002832 EamA-like transporter family; Region: EamA; pfam00892 373903002833 EamA-like transporter family; Region: EamA; pfam00892 373903002834 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 373903002835 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 373903002836 dihydrodipicolinate reductase; Provisional; Region: PRK00048 373903002837 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 373903002838 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 373903002839 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 373903002840 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 373903002841 NAD binding site [chemical binding]; other site 373903002842 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 373903002843 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 373903002844 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 373903002845 aspartate kinase I; Reviewed; Region: PRK08210 373903002846 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 373903002847 putative catalytic residues [active] 373903002848 putative nucleotide binding site [chemical binding]; other site 373903002849 putative aspartate binding site [chemical binding]; other site 373903002850 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 373903002851 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 373903002852 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 373903002853 dihydrodipicolinate synthase; Region: dapA; TIGR00674 373903002854 dimer interface [polypeptide binding]; other site 373903002855 active site 373903002856 catalytic residue [active] 373903002857 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 373903002858 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903002859 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 373903002860 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 373903002861 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 373903002862 active site 373903002863 YlzJ-like protein; Region: YlzJ; pfam14035 373903002864 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 373903002865 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 373903002866 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 373903002867 Bacitracin resistance protein BacA; Region: BacA; pfam02673 373903002868 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 373903002869 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 373903002870 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 373903002871 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 373903002872 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 373903002873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903002874 DNA-binding site [nucleotide binding]; DNA binding site 373903002875 UTRA domain; Region: UTRA; pfam07702 373903002876 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 373903002877 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 373903002878 Walker A/P-loop; other site 373903002879 ATP binding site [chemical binding]; other site 373903002880 Q-loop/lid; other site 373903002881 ABC transporter signature motif; other site 373903002882 Walker B; other site 373903002883 D-loop; other site 373903002884 H-loop/switch region; other site 373903002885 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 373903002886 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903002887 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 373903002888 TM-ABC transporter signature motif; other site 373903002889 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 373903002890 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903002891 TM-ABC transporter signature motif; other site 373903002892 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 373903002893 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 373903002894 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 373903002895 non-specific DNA binding site [nucleotide binding]; other site 373903002896 salt bridge; other site 373903002897 sequence-specific DNA binding site [nucleotide binding]; other site 373903002898 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 373903002899 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 373903002900 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 373903002901 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 373903002902 ATP binding site [chemical binding]; other site 373903002903 putative Mg++ binding site [ion binding]; other site 373903002904 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 373903002905 nucleotide binding region [chemical binding]; other site 373903002906 ATP-binding site [chemical binding]; other site 373903002907 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903002908 Predicted transcriptional regulator [Transcription]; Region: COG1959 373903002909 Transcriptional regulator; Region: Rrf2; cl17282 373903002910 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 373903002911 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 373903002912 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 373903002913 catalytic residue [active] 373903002914 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 373903002915 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 373903002916 trimerization site [polypeptide binding]; other site 373903002917 active site 373903002918 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 373903002919 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 373903002920 Ligand Binding Site [chemical binding]; other site 373903002921 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 373903002922 hypothetical protein; Provisional; Region: PRK10621 373903002923 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 373903002924 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 373903002925 Mechanosensitive ion channel; Region: MS_channel; pfam00924 373903002926 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 373903002927 cofactor binding site; other site 373903002928 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 373903002929 RNA/DNA hybrid binding site [nucleotide binding]; other site 373903002930 active site 373903002931 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 373903002932 metal binding site 2 [ion binding]; metal-binding site 373903002933 putative DNA binding helix; other site 373903002934 metal binding site 1 [ion binding]; metal-binding site 373903002935 dimer interface [polypeptide binding]; other site 373903002936 structural Zn2+ binding site [ion binding]; other site 373903002937 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 373903002938 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 373903002939 active site 373903002940 HIGH motif; other site 373903002941 dimer interface [polypeptide binding]; other site 373903002942 KMSKS motif; other site 373903002943 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 373903002944 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 373903002945 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 373903002946 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 373903002947 active site 373903002948 DNA polymerase IV; Validated; Region: PRK02406 373903002949 DNA binding site [nucleotide binding] 373903002950 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 373903002951 cell division protein MraZ; Reviewed; Region: PRK00326 373903002952 MraZ protein; Region: MraZ; pfam02381 373903002953 MraZ protein; Region: MraZ; pfam02381 373903002954 MraW methylase family; Region: Methyltransf_5; pfam01795 373903002955 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 373903002956 Cell division protein FtsL; Region: FtsL; cl11433 373903002957 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 373903002958 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 373903002959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 373903002960 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 373903002961 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 373903002962 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 373903002963 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 373903002964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 373903002965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903002966 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 373903002967 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 373903002968 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 373903002969 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903002970 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 373903002971 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 373903002972 Mg++ binding site [ion binding]; other site 373903002973 putative catalytic motif [active] 373903002974 putative substrate binding site [chemical binding]; other site 373903002975 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 373903002976 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 373903002977 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903002978 cell division protein FtsW; Region: ftsW; TIGR02614 373903002979 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 373903002980 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 373903002981 active site 373903002982 homodimer interface [polypeptide binding]; other site 373903002983 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 373903002984 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 373903002985 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 373903002986 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903002987 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 373903002988 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 373903002989 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 373903002990 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903002991 nucleotide binding site [chemical binding]; other site 373903002992 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 373903002993 Cell division protein FtsA; Region: FtsA; pfam14450 373903002994 cell division protein FtsZ; Validated; Region: PRK09330 373903002995 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 373903002996 nucleotide binding site [chemical binding]; other site 373903002997 SulA interaction site; other site 373903002998 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 373903002999 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 373903003000 sporulation sigma factor SigE; Reviewed; Region: PRK08301 373903003001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903003002 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 373903003003 DNA binding residues [nucleotide binding] 373903003004 sporulation sigma factor SigG; Reviewed; Region: PRK08215 373903003005 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903003006 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 373903003007 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 373903003008 DNA binding residues [nucleotide binding] 373903003009 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 373903003010 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 373903003011 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 373903003012 ATP cone domain; Region: ATP-cone; pfam03477 373903003013 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 373903003014 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 373903003015 HlyD family secretion protein; Region: HlyD_2; pfam12700 373903003016 putative membrane fusion protein; Region: TIGR02828 373903003017 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 373903003018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 373903003019 catalytic residue [active] 373903003020 Protein of unknown function (DUF552); Region: DUF552; cl00775 373903003021 YGGT family; Region: YGGT; pfam02325 373903003022 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 373903003023 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 373903003024 RNA binding surface [nucleotide binding]; other site 373903003025 DivIVA protein; Region: DivIVA; pfam05103 373903003026 DivIVA domain; Region: DivI1A_domain; TIGR03544 373903003027 T-box leader 373903003028 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 373903003029 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 373903003030 HIGH motif; other site 373903003031 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 373903003032 active site 373903003033 KMSKS motif; other site 373903003034 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 373903003035 tRNA binding surface [nucleotide binding]; other site 373903003036 anticodon binding site; other site 373903003037 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 373903003038 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 373903003039 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 373903003040 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 373903003041 threonine dehydratase; Provisional; Region: PRK08198 373903003042 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 373903003043 tetramer interface [polypeptide binding]; other site 373903003044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003045 catalytic residue [active] 373903003046 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 373903003047 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 373903003048 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 373903003049 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 373903003050 RNA binding surface [nucleotide binding]; other site 373903003051 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 373903003052 active site 373903003053 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903003054 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 373903003055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903003056 active site 373903003057 uracil-xanthine permease; Region: ncs2; TIGR00801 373903003058 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 373903003059 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 373903003060 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 373903003061 dihydroorotase; Validated; Region: pyrC; PRK09357 373903003062 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 373903003063 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 373903003064 active site 373903003065 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 373903003066 active site 373903003067 dimer interface [polypeptide binding]; other site 373903003068 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 373903003069 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 373903003070 FAD binding pocket [chemical binding]; other site 373903003071 FAD binding motif [chemical binding]; other site 373903003072 phosphate binding motif [ion binding]; other site 373903003073 beta-alpha-beta structure motif; other site 373903003074 NAD binding pocket [chemical binding]; other site 373903003075 Iron coordination center [ion binding]; other site 373903003076 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 373903003077 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 373903003078 heterodimer interface [polypeptide binding]; other site 373903003079 active site 373903003080 FMN binding site [chemical binding]; other site 373903003081 homodimer interface [polypeptide binding]; other site 373903003082 substrate binding site [chemical binding]; other site 373903003083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903003084 active site 373903003085 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903003086 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903003087 DNA binding site [nucleotide binding] 373903003088 domain linker motif; other site 373903003089 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 373903003090 ligand binding site [chemical binding]; other site 373903003091 putative transporter; Provisional; Region: PRK03699 373903003092 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 373903003093 putative substrate translocation pore; other site 373903003094 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 373903003095 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 373903003096 Ca binding site [ion binding]; other site 373903003097 active site 373903003098 catalytic site [active] 373903003099 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 373903003100 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 373903003101 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 373903003102 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 373903003103 active site 373903003104 catalytic site [active] 373903003105 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903003106 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903003107 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 373903003108 dimer interface [polypeptide binding]; other site 373903003109 conserved gate region; other site 373903003110 putative PBP binding loops; other site 373903003111 ABC-ATPase subunit interface; other site 373903003112 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903003113 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 373903003114 dimer interface [polypeptide binding]; other site 373903003115 conserved gate region; other site 373903003116 putative PBP binding loops; other site 373903003117 ABC-ATPase subunit interface; other site 373903003118 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903003119 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903003120 DNA binding site [nucleotide binding] 373903003121 domain linker motif; other site 373903003122 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903003123 dimerization interface [polypeptide binding]; other site 373903003124 ligand binding site [chemical binding]; other site 373903003125 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 373903003126 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 373903003127 putative ligand binding site [chemical binding]; other site 373903003128 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 373903003129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903003130 Walker A/P-loop; other site 373903003131 ATP binding site [chemical binding]; other site 373903003132 Q-loop/lid; other site 373903003133 ABC transporter signature motif; other site 373903003134 Walker B; other site 373903003135 D-loop; other site 373903003136 H-loop/switch region; other site 373903003137 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 373903003138 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903003139 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 373903003140 TM-ABC transporter signature motif; other site 373903003141 L-fucose isomerase; Provisional; Region: fucI; PRK10991 373903003142 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 373903003143 hexamer (dimer of trimers) interface [polypeptide binding]; other site 373903003144 trimer interface [polypeptide binding]; other site 373903003145 substrate binding site [chemical binding]; other site 373903003146 Mn binding site [ion binding]; other site 373903003147 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 373903003148 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 373903003149 N- and C-terminal domain interface [polypeptide binding]; other site 373903003150 putative active site [active] 373903003151 MgATP binding site [chemical binding]; other site 373903003152 catalytic site [active] 373903003153 metal binding site [ion binding]; metal-binding site 373903003154 putative xylulose binding site [chemical binding]; other site 373903003155 putative homodimer interface [polypeptide binding]; other site 373903003156 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 373903003157 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 373903003158 N- and C-terminal domain interface [polypeptide binding]; other site 373903003159 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 373903003160 active site 373903003161 putative catalytic site [active] 373903003162 metal binding site [ion binding]; metal-binding site 373903003163 ATP binding site [chemical binding]; other site 373903003164 carbohydrate binding site [chemical binding]; other site 373903003165 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 373903003166 intersubunit interface [polypeptide binding]; other site 373903003167 active site 373903003168 Zn2+ binding site [ion binding]; other site 373903003169 RDD family; Region: RDD; pfam06271 373903003170 peptidase T; Region: peptidase-T; TIGR01882 373903003171 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 373903003172 metal binding site [ion binding]; metal-binding site 373903003173 dimer interface [polypeptide binding]; other site 373903003174 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903003175 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 373903003176 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 373903003177 active site 373903003178 dimer interface [polypeptide binding]; other site 373903003179 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 373903003180 MG2 domain; Region: A2M_N; pfam01835 373903003181 Alpha-2-macroglobulin family; Region: A2M; pfam00207 373903003182 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 373903003183 surface patch; other site 373903003184 thioester region; other site 373903003185 specificity defining residues; other site 373903003186 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 373903003187 Transglycosylase; Region: Transgly; pfam00912 373903003188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 373903003189 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 373903003190 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 373903003191 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 373903003192 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 373903003193 active site 373903003194 catalytic site [active] 373903003195 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 373903003196 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903003197 substrate binding site [chemical binding]; other site 373903003198 ATP binding site [chemical binding]; other site 373903003199 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 373903003200 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 373903003201 active site 373903003202 metal binding site [ion binding]; metal-binding site 373903003203 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 373903003204 elongation factor G; Reviewed; Region: PRK12740 373903003205 G1 box; other site 373903003206 putative GEF interaction site [polypeptide binding]; other site 373903003207 GTP/Mg2+ binding site [chemical binding]; other site 373903003208 Switch I region; other site 373903003209 G2 box; other site 373903003210 G3 box; other site 373903003211 Switch II region; other site 373903003212 G4 box; other site 373903003213 G5 box; other site 373903003214 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 373903003215 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 373903003216 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 373903003217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 373903003218 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 373903003219 B12 binding domain; Region: B12-binding; pfam02310 373903003220 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 373903003221 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 373903003222 B12 cofactor binding site [chemical binding]; other site 373903003223 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 373903003224 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 373903003225 ligand binding site [chemical binding]; other site 373903003226 flexible hinge region; other site 373903003227 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 373903003228 putative switch regulator; other site 373903003229 non-specific DNA interactions [nucleotide binding]; other site 373903003230 DNA binding site [nucleotide binding] 373903003231 sequence specific DNA binding site [nucleotide binding]; other site 373903003232 putative cAMP binding site [chemical binding]; other site 373903003233 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 373903003234 putative active site [active] 373903003235 catalytic triad [active] 373903003236 putative dimer interface [polypeptide binding]; other site 373903003237 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 373903003238 Domain of unknown function (DUF814); Region: DUF814; pfam05670 373903003239 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 373903003240 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 373903003241 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 373903003242 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 373903003243 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 373903003244 motif II; other site 373903003245 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 373903003246 hypothetical protein; Provisional; Region: PRK04323 373903003247 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 373903003248 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 373903003249 catalytic site [active] 373903003250 G-X2-G-X-G-K; other site 373903003251 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 373903003252 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 373903003253 Flavoprotein; Region: Flavoprotein; pfam02441 373903003254 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 373903003255 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 373903003256 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903003257 S-adenosylmethionine synthetase; Validated; Region: PRK05250 373903003258 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 373903003259 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 373903003260 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 373903003261 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 373903003262 primosome assembly protein PriA; Validated; Region: PRK05580 373903003263 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 373903003264 ATP binding site [chemical binding]; other site 373903003265 putative Mg++ binding site [ion binding]; other site 373903003266 helicase superfamily c-terminal domain; Region: HELICc; smart00490 373903003267 ATP-binding site [chemical binding]; other site 373903003268 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 373903003269 active site 373903003270 catalytic residues [active] 373903003271 metal binding site [ion binding]; metal-binding site 373903003272 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 373903003273 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 373903003274 putative active site [active] 373903003275 substrate binding site [chemical binding]; other site 373903003276 putative cosubstrate binding site; other site 373903003277 catalytic site [active] 373903003278 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 373903003279 substrate binding site [chemical binding]; other site 373903003280 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 373903003281 NusB family; Region: NusB; pfam01029 373903003282 16S rRNA methyltransferase B; Provisional; Region: PRK14902 373903003283 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 373903003284 S-adenosylmethionine binding site [chemical binding]; other site 373903003285 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 373903003286 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 373903003287 FeS/SAM binding site; other site 373903003288 Protein phosphatase 2C; Region: PP2C; pfam00481 373903003289 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 373903003290 active site 373903003291 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 373903003292 Catalytic domain of Protein Kinases; Region: PKc; cd00180 373903003293 active site 373903003294 ATP binding site [chemical binding]; other site 373903003295 substrate binding site [chemical binding]; other site 373903003296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 373903003297 substrate binding site [chemical binding]; other site 373903003298 activation loop (A-loop); other site 373903003299 activation loop (A-loop); other site 373903003300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 373903003301 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 373903003302 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 373903003303 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 373903003304 GTPase RsgA; Reviewed; Region: PRK00098 373903003305 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 373903003306 RNA binding site [nucleotide binding]; other site 373903003307 homodimer interface [polypeptide binding]; other site 373903003308 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 373903003309 GTPase/Zn-binding domain interface [polypeptide binding]; other site 373903003310 GTP/Mg2+ binding site [chemical binding]; other site 373903003311 G4 box; other site 373903003312 G5 box; other site 373903003313 G1 box; other site 373903003314 Switch I region; other site 373903003315 G2 box; other site 373903003316 G3 box; other site 373903003317 Switch II region; other site 373903003318 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 373903003319 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 373903003320 substrate binding site [chemical binding]; other site 373903003321 hexamer interface [polypeptide binding]; other site 373903003322 metal binding site [ion binding]; metal-binding site 373903003323 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 373903003324 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 373903003325 catalytic motif [active] 373903003326 Zn binding site [ion binding]; other site 373903003327 RibD C-terminal domain; Region: RibD_C; cl17279 373903003328 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 373903003329 Lumazine binding domain; Region: Lum_binding; pfam00677 373903003330 Lumazine binding domain; Region: Lum_binding; pfam00677 373903003331 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 373903003332 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 373903003333 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 373903003334 dimerization interface [polypeptide binding]; other site 373903003335 active site 373903003336 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 373903003337 homopentamer interface [polypeptide binding]; other site 373903003338 active site 373903003339 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 373903003340 Thiamine pyrophosphokinase; Region: TPK; cd07995 373903003341 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 373903003342 active site 373903003343 dimerization interface [polypeptide binding]; other site 373903003344 thiamine binding site [chemical binding]; other site 373903003345 fumarate hydratase; Provisional; Region: PRK06246 373903003346 Fumarase C-terminus; Region: Fumerase_C; cl00795 373903003347 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 373903003348 Malic enzyme, N-terminal domain; Region: malic; pfam00390 373903003349 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 373903003350 putative NAD(P) binding site [chemical binding]; other site 373903003351 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 373903003352 Asp23 family; Region: Asp23; pfam03780 373903003353 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 373903003354 DAK2 domain; Region: Dak2; pfam02734 373903003355 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903003356 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903003357 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 373903003358 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 373903003359 ssDNA binding site; other site 373903003360 generic binding surface II; other site 373903003361 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 373903003362 ATP binding site [chemical binding]; other site 373903003363 putative Mg++ binding site [ion binding]; other site 373903003364 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 373903003365 nucleotide binding region [chemical binding]; other site 373903003366 ATP-binding site [chemical binding]; other site 373903003367 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 373903003368 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 373903003369 S-adenosylmethionine binding site [chemical binding]; other site 373903003370 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 373903003371 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 373903003372 active site 373903003373 (T/H)XGH motif; other site 373903003374 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 373903003375 Nucleoside recognition; Region: Gate; pfam07670 373903003376 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 373903003377 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 373903003378 motif II; other site 373903003379 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 373903003380 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 373903003381 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 373903003382 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 373903003383 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903003384 hypothetical protein; Provisional; Region: PRK13670 373903003385 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 373903003386 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 373903003387 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 373903003388 propionate/acetate kinase; Provisional; Region: PRK12379 373903003389 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 373903003390 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 373903003391 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 373903003392 HTH domain; Region: HTH_11; cl17392 373903003393 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; cd03440 373903003394 active site 2 [active] 373903003395 active site 1 [active] 373903003396 putative phosphate acyltransferase; Provisional; Region: PRK05331 373903003397 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 373903003398 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 373903003399 dimer interface [polypeptide binding]; other site 373903003400 active site 373903003401 CoA binding pocket [chemical binding]; other site 373903003402 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 373903003403 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 373903003404 FMN binding site [chemical binding]; other site 373903003405 substrate binding site [chemical binding]; other site 373903003406 putative catalytic residue [active] 373903003407 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 373903003408 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 373903003409 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 373903003410 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 373903003411 NAD(P) binding site [chemical binding]; other site 373903003412 homotetramer interface [polypeptide binding]; other site 373903003413 homodimer interface [polypeptide binding]; other site 373903003414 active site 373903003415 acyl carrier protein; Provisional; Region: acpP; PRK00982 373903003416 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 373903003417 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 373903003418 dimer interface [polypeptide binding]; other site 373903003419 active site 373903003420 ribonuclease III; Reviewed; Region: rnc; PRK00102 373903003421 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 373903003422 dimerization interface [polypeptide binding]; other site 373903003423 active site 373903003424 metal binding site [ion binding]; metal-binding site 373903003425 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 373903003426 dsRNA binding site [nucleotide binding]; other site 373903003427 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 373903003428 homotrimer interaction site [polypeptide binding]; other site 373903003429 active site 373903003430 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 373903003431 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 373903003432 prephenate dehydrogenase; Validated; Region: PRK08507 373903003433 Prephenate dehydrogenase; Region: PDH; pfam02153 373903003434 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 373903003435 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 373903003436 hinge; other site 373903003437 active site 373903003438 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 373903003439 EamA-like transporter family; Region: EamA; pfam00892 373903003440 EamA-like transporter family; Region: EamA; pfam00892 373903003441 cytidylate kinase; Provisional; Region: cmk; PRK00023 373903003442 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 373903003443 CMP-binding site; other site 373903003444 The sites determining sugar specificity; other site 373903003445 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 373903003446 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 373903003447 putative acyl-acceptor binding pocket; other site 373903003448 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 373903003449 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 373903003450 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 373903003451 Histidine kinase; Region: His_kinase; pfam06580 373903003452 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 373903003453 ATP binding site [chemical binding]; other site 373903003454 Mg2+ binding site [ion binding]; other site 373903003455 G-X-G motif; other site 373903003456 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 373903003457 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 373903003458 active site 373903003459 phosphorylation site [posttranslational modification] 373903003460 intermolecular recognition site; other site 373903003461 dimerization interface [polypeptide binding]; other site 373903003462 LytTr DNA-binding domain; Region: LytTR; smart00850 373903003463 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 373903003464 Carbon starvation protein CstA; Region: CstA; pfam02554 373903003465 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 373903003466 Hemerythrin; Region: Hemerythrin; cd12107 373903003467 Fe binding site [ion binding]; other site 373903003468 LytB protein; Region: LYTB; cl00507 373903003469 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 373903003470 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 373903003471 RNA binding site [nucleotide binding]; other site 373903003472 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 373903003473 RNA binding site [nucleotide binding]; other site 373903003474 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 373903003475 RNA binding site [nucleotide binding]; other site 373903003476 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 373903003477 RNA binding site [nucleotide binding]; other site 373903003478 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 373903003479 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 373903003480 stage II sporulation protein P; Region: spore_II_P; TIGR02867 373903003481 YIEGIA protein; Region: YIEGIA; pfam14045 373903003482 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 373903003483 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 373903003484 GTP-binding protein Der; Reviewed; Region: PRK00093 373903003485 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 373903003486 G1 box; other site 373903003487 GTP/Mg2+ binding site [chemical binding]; other site 373903003488 Switch I region; other site 373903003489 G2 box; other site 373903003490 Switch II region; other site 373903003491 G3 box; other site 373903003492 G4 box; other site 373903003493 G5 box; other site 373903003494 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 373903003495 G1 box; other site 373903003496 GTP/Mg2+ binding site [chemical binding]; other site 373903003497 Switch I region; other site 373903003498 G2 box; other site 373903003499 G3 box; other site 373903003500 Switch II region; other site 373903003501 G4 box; other site 373903003502 G5 box; other site 373903003503 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 373903003504 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 373903003505 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 373903003506 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 373903003507 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 373903003508 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 373903003509 G1 box; other site 373903003510 GTP/Mg2+ binding site [chemical binding]; other site 373903003511 G2 box; other site 373903003512 Switch I region; other site 373903003513 G3 box; other site 373903003514 Switch II region; other site 373903003515 G4 box; other site 373903003516 G5 box; other site 373903003517 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 373903003518 IHF dimer interface [polypeptide binding]; other site 373903003519 IHF - DNA interface [nucleotide binding]; other site 373903003520 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 373903003521 TrkA-N domain; Region: TrkA_N; pfam02254 373903003522 TrkA-C domain; Region: TrkA_C; pfam02080 373903003523 TrkA-N domain; Region: TrkA_N; pfam02254 373903003524 TrkA-C domain; Region: TrkA_C; pfam02080 373903003525 OsmC-like protein; Region: OsmC; pfam02566 373903003526 Cation transport protein; Region: TrkH; cl17365 373903003527 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 373903003528 Response regulator receiver domain; Region: Response_reg; pfam00072 373903003529 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 373903003530 active site 373903003531 phosphorylation site [posttranslational modification] 373903003532 intermolecular recognition site; other site 373903003533 dimerization interface [polypeptide binding]; other site 373903003534 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 373903003535 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 373903003536 dimerization interface [polypeptide binding]; other site 373903003537 domain crossover interface; other site 373903003538 redox-dependent activation switch; other site 373903003539 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 373903003540 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 373903003541 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 373903003542 active site 373903003543 putative substrate binding pocket [chemical binding]; other site 373903003544 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 373903003545 MPN+ (JAMM) motif; other site 373903003546 Zinc-binding site [ion binding]; other site 373903003547 von Willebrand factor type A domain; Region: VWA_2; pfam13519 373903003548 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 373903003549 Uncharacterized conserved protein [Function unknown]; Region: COG1615 373903003550 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 373903003551 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 373903003552 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 373903003553 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 373903003554 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 373903003555 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 373903003556 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 373903003557 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 373903003558 putative substrate translocation pore; other site 373903003559 epoxyqueuosine reductase; Region: TIGR00276 373903003560 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 373903003561 HEAT repeats; Region: HEAT_2; pfam13646 373903003562 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 373903003563 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 373903003564 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 373903003565 active site 373903003566 Uncharacterized conserved protein [Function unknown]; Region: COG5663 373903003567 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 373903003568 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 373903003569 minor groove reading motif; other site 373903003570 helix-hairpin-helix signature motif; other site 373903003571 substrate binding pocket [chemical binding]; other site 373903003572 active site 373903003573 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 373903003574 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003575 binding surface 373903003576 Tetratricopeptide repeat; Region: TPR_16; pfam13432 373903003577 TPR motif; other site 373903003578 TPR repeat; Region: TPR_11; pfam13414 373903003579 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003580 binding surface 373903003581 TPR motif; other site 373903003582 TPR repeat; Region: TPR_11; pfam13414 373903003583 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 373903003584 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 373903003585 homodimer interface [polypeptide binding]; other site 373903003586 substrate-cofactor binding pocket; other site 373903003587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003588 catalytic residue [active] 373903003589 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 373903003590 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 373903003591 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 373903003592 PYR/PP interface [polypeptide binding]; other site 373903003593 dimer interface [polypeptide binding]; other site 373903003594 TPP binding site [chemical binding]; other site 373903003595 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 373903003596 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 373903003597 TPP-binding site [chemical binding]; other site 373903003598 dimer interface [polypeptide binding]; other site 373903003599 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 373903003600 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 373903003601 putative valine binding site [chemical binding]; other site 373903003602 dimer interface [polypeptide binding]; other site 373903003603 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 373903003604 ketol-acid reductoisomerase; Provisional; Region: PRK05479 373903003605 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 373903003606 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 373903003607 2-isopropylmalate synthase; Validated; Region: PRK00915 373903003608 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 373903003609 active site 373903003610 catalytic residues [active] 373903003611 metal binding site [ion binding]; metal-binding site 373903003612 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 373903003613 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 373903003614 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 373903003615 substrate binding site [chemical binding]; other site 373903003616 ligand binding site [chemical binding]; other site 373903003617 3-isopropylmalate dehydratase, small subunit; Region: leud; TIGR02084 373903003618 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 373903003619 substrate binding site [chemical binding]; other site 373903003620 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 373903003621 tartrate dehydrogenase; Region: TTC; TIGR02089 373903003622 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 373903003623 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 373903003624 active site 373903003625 catalytic residues [active] 373903003626 metal binding site [ion binding]; metal-binding site 373903003627 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 373903003628 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 373903003629 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 373903003630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003631 homodimer interface [polypeptide binding]; other site 373903003632 catalytic residue [active] 373903003633 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 373903003634 trimer interface [polypeptide binding]; other site 373903003635 putative Zn binding site [ion binding]; other site 373903003636 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 373903003637 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 373903003638 putative active site [active] 373903003639 PhoH-like protein; Region: PhoH; pfam02562 373903003640 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 373903003641 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 373903003642 DNA binding residues [nucleotide binding] 373903003643 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003644 binding surface 373903003645 TPR motif; other site 373903003646 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003647 binding surface 373903003648 TPR motif; other site 373903003649 Stage II sporulation protein; Region: SpoIID; pfam08486 373903003650 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 373903003651 Predicted membrane protein [Function unknown]; Region: COG3601 373903003652 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003653 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 373903003654 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003655 Peptidase family M23; Region: Peptidase_M23; pfam01551 373903003656 putative hydrolase; Provisional; Region: PRK02113 373903003657 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 373903003658 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 373903003659 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903003660 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 373903003661 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003662 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003663 Peptidase family M23; Region: Peptidase_M23; pfam01551 373903003664 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 373903003665 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 373903003666 FeS/SAM binding site; other site 373903003667 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 373903003668 ATP cone domain; Region: ATP-cone; pfam03477 373903003669 Class III ribonucleotide reductase; Region: RNR_III; cd01675 373903003670 effector binding site; other site 373903003671 active site 373903003672 Zn binding site [ion binding]; other site 373903003673 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 373903003674 Radical SAM superfamily; Region: Radical_SAM; pfam04055 373903003675 FeS/SAM binding site; other site 373903003676 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 373903003677 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 373903003678 active site 373903003679 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 373903003680 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 373903003681 active site 373903003682 DNA binding site [nucleotide binding] 373903003683 Int/Topo IB signature motif; other site 373903003684 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 373903003685 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 373903003686 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 373903003687 OPT oligopeptide transporter protein; Region: OPT; cl14607 373903003688 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 373903003689 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 373903003690 HflX GTPase family; Region: HflX; cd01878 373903003691 G1 box; other site 373903003692 GTP/Mg2+ binding site [chemical binding]; other site 373903003693 Switch I region; other site 373903003694 G2 box; other site 373903003695 G3 box; other site 373903003696 Switch II region; other site 373903003697 G4 box; other site 373903003698 G5 box; other site 373903003699 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 373903003700 active site 373903003701 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 373903003702 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903003703 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 373903003704 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 373903003705 C-terminal domain interface [polypeptide binding]; other site 373903003706 GSH binding site (G-site) [chemical binding]; other site 373903003707 dimer interface [polypeptide binding]; other site 373903003708 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 373903003709 putative FMN binding site [chemical binding]; other site 373903003710 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 373903003711 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 373903003712 H+ Antiporter protein; Region: 2A0121; TIGR00900 373903003713 putative substrate translocation pore; other site 373903003714 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 373903003715 dimerization interface [polypeptide binding]; other site 373903003716 putative DNA binding site [nucleotide binding]; other site 373903003717 putative Zn2+ binding site [ion binding]; other site 373903003718 TPR repeat; Region: TPR_11; pfam13414 373903003719 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003720 binding surface 373903003721 TPR motif; other site 373903003722 TPR repeat; Region: TPR_11; pfam13414 373903003723 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 373903003724 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 373903003725 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 373903003726 Protein of unknown function (DUF456); Region: DUF456; pfam04306 373903003727 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 373903003728 DJ-1 family protein; Region: not_thiJ; TIGR01383 373903003729 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 373903003730 conserved cys residue [active] 373903003731 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 373903003732 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 373903003733 motif II; other site 373903003734 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 373903003735 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 373903003736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003737 catalytic residue [active] 373903003738 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003739 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903003740 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003741 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003742 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 373903003743 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 373903003744 catalytic residues [active] 373903003745 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 373903003746 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903003747 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903003748 PGAP1-like protein; Region: PGAP1; pfam07819 373903003749 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 373903003750 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 373903003751 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 373903003752 catalytic residues [active] 373903003753 catalytic nucleophile [active] 373903003754 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903003755 LexA repressor; Validated; Region: PRK00215 373903003756 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 373903003757 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 373903003758 Catalytic site [active] 373903003759 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 373903003760 Fe-S cluster binding site [ion binding]; other site 373903003761 active site 373903003762 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 373903003763 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 373903003764 dimer interface [polypeptide binding]; other site 373903003765 conserved gate region; other site 373903003766 putative PBP binding loops; other site 373903003767 ABC-ATPase subunit interface; other site 373903003768 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 373903003769 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 373903003770 Walker A/P-loop; other site 373903003771 ATP binding site [chemical binding]; other site 373903003772 Q-loop/lid; other site 373903003773 ABC transporter signature motif; other site 373903003774 Walker B; other site 373903003775 D-loop; other site 373903003776 H-loop/switch region; other site 373903003777 NMT1-like family; Region: NMT1_2; pfam13379 373903003778 NMT1/THI5 like; Region: NMT1; pfam09084 373903003779 histidinol-phosphatase; Provisional; Region: PRK07328 373903003780 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 373903003781 active site 373903003782 dimer interface [polypeptide binding]; other site 373903003783 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 373903003784 homodimer interface [polypeptide binding]; other site 373903003785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003786 catalytic residue [active] 373903003787 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 373903003788 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 373903003789 ligand binding site [chemical binding]; other site 373903003790 NAD binding site [chemical binding]; other site 373903003791 dimerization interface [polypeptide binding]; other site 373903003792 catalytic site [active] 373903003793 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 373903003794 putative L-serine binding site [chemical binding]; other site 373903003795 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003796 TPR motif; other site 373903003797 Tetratricopeptide repeat; Region: TPR_12; pfam13424 373903003798 binding surface 373903003799 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 373903003800 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 373903003801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903003802 homodimer interface [polypeptide binding]; other site 373903003803 catalytic residue [active] 373903003804 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 373903003805 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 373903003806 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 373903003807 bacterial Hfq-like; Region: Hfq; cd01716 373903003808 Sm1 motif; other site 373903003809 RNA binding site [nucleotide binding]; other site 373903003810 hexamer interface [polypeptide binding]; other site 373903003811 Sm2 motif; other site 373903003812 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 373903003813 G1 box; other site 373903003814 GTP/Mg2+ binding site [chemical binding]; other site 373903003815 G2 box; other site 373903003816 Switch I region; other site 373903003817 G3 box; other site 373903003818 Switch II region; other site 373903003819 G4 box; other site 373903003820 G5 box; other site 373903003821 stage V sporulation protein K; Region: spore_V_K; TIGR02881 373903003822 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 373903003823 Walker A motif; other site 373903003824 ATP binding site [chemical binding]; other site 373903003825 Walker B motif; other site 373903003826 arginine finger; other site 373903003827 TrkA-N domain; Region: TrkA_N; pfam02254 373903003828 TrkA-C domain; Region: TrkA_C; pfam02080 373903003829 ydaO/yuaA leader 373903003830 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 373903003831 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 373903003832 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 373903003833 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 373903003834 ATP binding site [chemical binding]; other site 373903003835 Mg2+ binding site [ion binding]; other site 373903003836 G-X-G motif; other site 373903003837 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 373903003838 ATP binding site [chemical binding]; other site 373903003839 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 373903003840 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 373903003841 MutS domain I; Region: MutS_I; pfam01624 373903003842 MutS domain II; Region: MutS_II; pfam05188 373903003843 MutS domain III; Region: MutS_III; pfam05192 373903003844 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 373903003845 Walker A/P-loop; other site 373903003846 ATP binding site [chemical binding]; other site 373903003847 Q-loop/lid; other site 373903003848 ABC transporter signature motif; other site 373903003849 Walker B; other site 373903003850 D-loop; other site 373903003851 H-loop/switch region; other site 373903003852 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 373903003853 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 373903003854 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 373903003855 FeS/SAM binding site; other site 373903003856 TRAM domain; Region: TRAM; pfam01938 373903003857 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 373903003858 TrkA-N domain; Region: TrkA_N; pfam02254 373903003859 TrkA-C domain; Region: TrkA_C; pfam02080 373903003860 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 373903003861 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 373903003862 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 373903003863 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 373903003864 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 373903003865 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 373903003866 Cl- selectivity filter; other site 373903003867 Cl- binding residues [ion binding]; other site 373903003868 pore gating glutamate residue; other site 373903003869 dimer interface [polypeptide binding]; other site 373903003870 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 373903003871 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 373903003872 ATP binding site [chemical binding]; other site 373903003873 Mg2+ binding site [ion binding]; other site 373903003874 G-X-G motif; other site 373903003875 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 373903003876 anchoring element; other site 373903003877 dimer interface [polypeptide binding]; other site 373903003878 ATP binding site [chemical binding]; other site 373903003879 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 373903003880 active site 373903003881 putative metal-binding site [ion binding]; other site 373903003882 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 373903003883 DNA gyrase subunit A; Validated; Region: PRK05560 373903003884 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 373903003885 CAP-like domain; other site 373903003886 active site 373903003887 primary dimer interface [polypeptide binding]; other site 373903003888 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903003889 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 373903003890 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903003891 S-layer homology domain; Region: SLH; pfam00395 373903003892 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 373903003893 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 373903003894 dockerin binding interface; other site 373903003895 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 373903003896 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 373903003897 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 373903003898 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 373903003899 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 373903003900 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 373903003901 active site 373903003902 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 373903003903 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 373903003904 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 373903003905 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 373903003906 phosphodiesterase; Provisional; Region: PRK12704 373903003907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903003908 Zn2+ binding site [ion binding]; other site 373903003909 Mg2+ binding site [ion binding]; other site 373903003910 recombination regulator RecX; Reviewed; Region: recX; PRK00117 373903003911 recombinase A; Provisional; Region: recA; PRK09354 373903003912 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 373903003913 hexamer interface [polypeptide binding]; other site 373903003914 Walker A motif; other site 373903003915 ATP binding site [chemical binding]; other site 373903003916 Walker B motif; other site 373903003917 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 373903003918 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 373903003919 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 373903003920 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003921 TPR motif; other site 373903003922 binding surface 373903003923 TPR repeat; Region: TPR_11; pfam13414 373903003924 Tetratricopeptide repeat; Region: TPR_12; pfam13424 373903003925 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003926 binding surface 373903003927 TPR motif; other site 373903003928 Tetratricopeptide repeat; Region: TPR_16; pfam13432 373903003929 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903003930 binding surface 373903003931 TPR motif; other site 373903003932 TPR repeat; Region: TPR_11; pfam13414 373903003933 competence damage-inducible protein A; Provisional; Region: PRK00549 373903003934 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 373903003935 putative MPT binding site; other site 373903003936 Competence-damaged protein; Region: CinA; pfam02464 373903003937 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 373903003938 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 373903003939 Walker A motif; other site 373903003940 ATP binding site [chemical binding]; other site 373903003941 Walker B motif; other site 373903003942 arginine finger; other site 373903003943 Peptidase family M41; Region: Peptidase_M41; pfam01434 373903003944 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 373903003945 tetramer interfaces [polypeptide binding]; other site 373903003946 binuclear metal-binding site [ion binding]; other site 373903003947 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 373903003948 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 373903003949 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 373903003950 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 373903003951 FeS/SAM binding site; other site 373903003952 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 373903003953 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 373903003954 Methyltransferase domain; Region: Methyltransf_31; pfam13847 373903003955 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 373903003956 S-adenosylmethionine binding site [chemical binding]; other site 373903003957 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903003958 Uncharacterized conserved protein [Function unknown]; Region: COG1739 373903003959 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 373903003960 recombination factor protein RarA; Reviewed; Region: PRK13342 373903003961 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 373903003962 Walker A motif; other site 373903003963 ATP binding site [chemical binding]; other site 373903003964 Walker B motif; other site 373903003965 arginine finger; other site 373903003966 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 373903003967 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 373903003968 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 373903003969 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 373903003970 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 373903003971 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12667 373903003972 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 373903003973 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 373903003974 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 373903003975 hypothetical protein; Provisional; Region: PRK08378 373903003976 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 373903003977 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 373903003978 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 373903003979 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 373903003980 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 373903003981 dimer interface [polypeptide binding]; other site 373903003982 anticodon binding site; other site 373903003983 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 373903003984 homodimer interface [polypeptide binding]; other site 373903003985 motif 1; other site 373903003986 active site 373903003987 motif 2; other site 373903003988 GAD domain; Region: GAD; pfam02938 373903003989 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 373903003990 motif 3; other site 373903003991 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 373903003992 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 373903003993 dimer interface [polypeptide binding]; other site 373903003994 motif 1; other site 373903003995 active site 373903003996 motif 2; other site 373903003997 motif 3; other site 373903003998 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 373903003999 anticodon binding site; other site 373903004000 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 373903004001 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 373903004002 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903004003 TPR motif; other site 373903004004 binding surface 373903004005 TPR repeat; Region: TPR_11; pfam13414 373903004006 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 373903004007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903004008 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 373903004009 putative active site [active] 373903004010 dimerization interface [polypeptide binding]; other site 373903004011 putative tRNAtyr binding site [nucleotide binding]; other site 373903004012 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 373903004013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004014 Zn2+ binding site [ion binding]; other site 373903004015 Mg2+ binding site [ion binding]; other site 373903004016 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 373903004017 synthetase active site [active] 373903004018 NTP binding site [chemical binding]; other site 373903004019 metal binding site [ion binding]; metal-binding site 373903004020 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 373903004021 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 373903004022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903004023 active site 373903004024 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 373903004025 DHH family; Region: DHH; pfam01368 373903004026 DHHA1 domain; Region: DHHA1; pfam02272 373903004027 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 373903004028 ABC1 family; Region: ABC1; cl17513 373903004029 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 373903004030 Uncharacterized conserved protein [Function unknown]; Region: COG3937 373903004031 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 373903004032 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 373903004033 Protein export membrane protein; Region: SecD_SecF; pfam02355 373903004034 protein-export membrane protein SecD; Region: secD; TIGR01129 373903004035 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 373903004036 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 373903004037 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 373903004038 Catalytic site [active] 373903004039 Preprotein translocase subunit; Region: YajC; pfam02699 373903004040 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 373903004041 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 373903004042 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 373903004043 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 373903004044 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 373903004045 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 373903004046 Walker A motif; other site 373903004047 ATP binding site [chemical binding]; other site 373903004048 Walker B motif; other site 373903004049 arginine finger; other site 373903004050 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 373903004051 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 373903004052 RuvA N terminal domain; Region: RuvA_N; pfam01330 373903004053 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 373903004054 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 373903004055 active site 373903004056 putative DNA-binding cleft [nucleotide binding]; other site 373903004057 dimer interface [polypeptide binding]; other site 373903004058 BofC C-terminal domain; Region: BofC_C; pfam08955 373903004059 hypothetical protein; Validated; Region: PRK00110 373903004060 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 373903004061 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 373903004062 GAF domain; Region: GAF_3; pfam13492 373903004063 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 373903004064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 373903004065 metal binding site [ion binding]; metal-binding site 373903004066 active site 373903004067 I-site; other site 373903004068 Uncharacterized conserved protein [Function unknown]; Region: COG0327 373903004069 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 373903004070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 373903004071 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 373903004072 Uncharacterized conserved protein [Function unknown]; Region: COG0327 373903004073 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 373903004074 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 373903004075 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 373903004076 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903004077 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 373903004078 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 373903004079 DNA binding residues [nucleotide binding] 373903004080 DNA primase; Validated; Region: dnaG; PRK05667 373903004081 CHC2 zinc finger; Region: zf-CHC2; pfam01807 373903004082 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 373903004083 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 373903004084 active site 373903004085 metal binding site [ion binding]; metal-binding site 373903004086 interdomain interaction site; other site 373903004087 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 373903004088 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 373903004089 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004090 Zn2+ binding site [ion binding]; other site 373903004091 Mg2+ binding site [ion binding]; other site 373903004092 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 373903004093 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 373903004094 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 373903004095 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 373903004096 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 373903004097 dimer interface [polypeptide binding]; other site 373903004098 motif 1; other site 373903004099 active site 373903004100 motif 2; other site 373903004101 motif 3; other site 373903004102 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 373903004103 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 373903004104 Recombination protein O N terminal; Region: RecO_N; pfam11967 373903004105 Recombination protein O C terminal; Region: RecO_C; pfam02565 373903004106 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 373903004107 intersubunit interface [polypeptide binding]; other site 373903004108 active site 373903004109 catalytic residue [active] 373903004110 MgtE intracellular N domain; Region: MgtE_N; pfam03448 373903004111 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 373903004112 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 373903004113 Divalent cation transporter; Region: MgtE; pfam01769 373903004114 GTPase Era; Reviewed; Region: era; PRK00089 373903004115 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 373903004116 G1 box; other site 373903004117 GTP/Mg2+ binding site [chemical binding]; other site 373903004118 Switch I region; other site 373903004119 G2 box; other site 373903004120 Switch II region; other site 373903004121 G3 box; other site 373903004122 G4 box; other site 373903004123 G5 box; other site 373903004124 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 373903004125 active site 373903004126 catalytic motif [active] 373903004127 Zn binding site [ion binding]; other site 373903004128 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 373903004129 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 373903004130 Uncharacterized conserved protein [Function unknown]; Region: COG2928 373903004131 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 373903004132 Domain of unknown function DUF21; Region: DUF21; pfam01595 373903004133 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 373903004134 Transporter associated domain; Region: CorC_HlyC; smart01091 373903004135 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 373903004136 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 373903004137 active site 373903004138 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 373903004139 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 373903004140 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 373903004141 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 373903004142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004143 Zn2+ binding site [ion binding]; other site 373903004144 Mg2+ binding site [ion binding]; other site 373903004145 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 373903004146 PhoH-like protein; Region: PhoH; pfam02562 373903004147 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 373903004148 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 373903004149 YabP family; Region: YabP; cl06766 373903004150 Predicted membrane protein [Function unknown]; Region: COG2323 373903004151 phage assembly protein; Region: IV; PHA00019 373903004152 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 373903004153 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 373903004154 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 373903004155 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 373903004156 putative active site [active] 373903004157 HTH domain; Region: HTH_11; pfam08279 373903004158 FOG: CBS domain [General function prediction only]; Region: COG0517 373903004159 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_4; cd04617 373903004160 phosphoenolpyruvate synthase; Validated; Region: PRK06464 373903004161 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 373903004162 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 373903004163 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 373903004164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004165 Zn2+ binding site [ion binding]; other site 373903004166 Mg2+ binding site [ion binding]; other site 373903004167 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 373903004168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004169 Zn2+ binding site [ion binding]; other site 373903004170 Mg2+ binding site [ion binding]; other site 373903004171 Yqey-like protein; Region: YqeY; pfam09424 373903004172 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 373903004173 nucleotide binding site/active site [active] 373903004174 HIT family signature motif; other site 373903004175 catalytic residue [active] 373903004176 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 373903004177 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 373903004178 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 373903004179 FeS/SAM binding site; other site 373903004180 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 373903004181 RNA methyltransferase, RsmE family; Region: TIGR00046 373903004182 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 373903004183 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 373903004184 S-adenosylmethionine binding site [chemical binding]; other site 373903004185 chaperone protein DnaJ; Provisional; Region: PRK10767 373903004186 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 373903004187 HSP70 interaction site [polypeptide binding]; other site 373903004188 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 373903004189 substrate binding site [polypeptide binding]; other site 373903004190 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 373903004191 Zn binding sites [ion binding]; other site 373903004192 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 373903004193 dimer interface [polypeptide binding]; other site 373903004194 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 373903004195 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 373903004196 nucleotide binding site [chemical binding]; other site 373903004197 NEF interaction site [polypeptide binding]; other site 373903004198 SBD interface [polypeptide binding]; other site 373903004199 heat shock protein GrpE; Provisional; Region: PRK14140 373903004200 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 373903004201 dimer interface [polypeptide binding]; other site 373903004202 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 373903004203 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 373903004204 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 373903004205 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 373903004206 FeS/SAM binding site; other site 373903004207 HemN C-terminal domain; Region: HemN_C; pfam06969 373903004208 GTP-binding protein LepA; Provisional; Region: PRK05433 373903004209 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 373903004210 G1 box; other site 373903004211 putative GEF interaction site [polypeptide binding]; other site 373903004212 GTP/Mg2+ binding site [chemical binding]; other site 373903004213 Switch I region; other site 373903004214 G2 box; other site 373903004215 G3 box; other site 373903004216 Switch II region; other site 373903004217 G4 box; other site 373903004218 G5 box; other site 373903004219 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 373903004220 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 373903004221 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 373903004222 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 373903004223 stage II sporulation protein P; Region: spore_II_P; TIGR02867 373903004224 germination protease; Provisional; Region: PRK12362 373903004225 Membrane protein of unknown function; Region: DUF360; pfam04020 373903004226 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 373903004227 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 373903004228 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 373903004229 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 373903004230 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 373903004231 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 373903004232 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 373903004233 Competence protein; Region: Competence; pfam03772 373903004234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903004235 SLBB domain; Region: SLBB; pfam10531 373903004236 comEA protein; Region: comE; TIGR01259 373903004237 Helix-hairpin-helix motif; Region: HHH; pfam00633 373903004238 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 373903004239 EamA-like transporter family; Region: EamA; pfam00892 373903004240 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 373903004241 peroxiredoxin; Provisional; Region: PRK13189 373903004242 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 373903004243 dimer interface [polypeptide binding]; other site 373903004244 decamer (pentamer of dimers) interface [polypeptide binding]; other site 373903004245 catalytic triad [active] 373903004246 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 373903004247 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 373903004248 ATP-binding site [chemical binding]; other site 373903004249 Sugar specificity; other site 373903004250 Pyrimidine base specificity; other site 373903004251 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 373903004252 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 373903004253 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 373903004254 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 373903004255 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 373903004256 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 373903004257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903004258 Walker A/P-loop; other site 373903004259 ATP binding site [chemical binding]; other site 373903004260 Q-loop/lid; other site 373903004261 ABC transporter signature motif; other site 373903004262 Walker B; other site 373903004263 D-loop; other site 373903004264 H-loop/switch region; other site 373903004265 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 373903004266 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 373903004267 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 373903004268 Walker A/P-loop; other site 373903004269 ATP binding site [chemical binding]; other site 373903004270 Q-loop/lid; other site 373903004271 ABC transporter signature motif; other site 373903004272 Walker B; other site 373903004273 D-loop; other site 373903004274 H-loop/switch region; other site 373903004275 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 373903004276 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 373903004277 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 373903004278 Walker A/P-loop; other site 373903004279 ATP binding site [chemical binding]; other site 373903004280 Q-loop/lid; other site 373903004281 ABC transporter signature motif; other site 373903004282 Walker B; other site 373903004283 D-loop; other site 373903004284 H-loop/switch region; other site 373903004285 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 373903004286 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 373903004287 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 373903004288 dimer interface [polypeptide binding]; other site 373903004289 conserved gate region; other site 373903004290 putative PBP binding loops; other site 373903004291 ABC-ATPase subunit interface; other site 373903004292 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 373903004293 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 373903004294 dimer interface [polypeptide binding]; other site 373903004295 conserved gate region; other site 373903004296 putative PBP binding loops; other site 373903004297 ABC-ATPase subunit interface; other site 373903004298 potential frameshift: common BLAST hit: gi|42526582|ref|NP_971680.1| putative lipoprotein 373903004299 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 373903004300 Predicted solute binding protein [General function prediction only]; Region: COG3889 373903004301 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 373903004302 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 373903004303 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 373903004304 putative NAD(P) binding site [chemical binding]; other site 373903004305 catalytic Zn binding site [ion binding]; other site 373903004306 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 373903004307 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 373903004308 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 373903004309 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903004310 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 373903004311 dimer interface [polypeptide binding]; other site 373903004312 conserved gate region; other site 373903004313 putative PBP binding loops; other site 373903004314 ABC-ATPase subunit interface; other site 373903004315 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 373903004316 dimer interface [polypeptide binding]; other site 373903004317 conserved gate region; other site 373903004318 putative PBP binding loops; other site 373903004319 ABC-ATPase subunit interface; other site 373903004320 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903004321 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903004322 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903004323 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903004324 DNA binding site [nucleotide binding] 373903004325 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_1; cd06277 373903004326 putative dimerization interface [polypeptide binding]; other site 373903004327 putative ligand binding site [chemical binding]; other site 373903004328 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 373903004329 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 373903004330 active site 373903004331 catalytic site [active] 373903004332 metal binding site [ion binding]; metal-binding site 373903004333 dimer interface [polypeptide binding]; other site 373903004334 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 373903004335 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903004336 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 373903004337 dimer interface [polypeptide binding]; other site 373903004338 conserved gate region; other site 373903004339 putative PBP binding loops; other site 373903004340 ABC-ATPase subunit interface; other site 373903004341 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 373903004342 dimer interface [polypeptide binding]; other site 373903004343 conserved gate region; other site 373903004344 putative PBP binding loops; other site 373903004345 ABC-ATPase subunit interface; other site 373903004346 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903004347 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903004348 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903004349 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903004350 DNA binding site [nucleotide binding] 373903004351 domain linker motif; other site 373903004352 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903004353 dimerization interface [polypeptide binding]; other site 373903004354 ligand binding site [chemical binding]; other site 373903004355 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 373903004356 active site 373903004357 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 373903004358 FMN binding site [chemical binding]; other site 373903004359 dimer interface [polypeptide binding]; other site 373903004360 CAAX protease self-immunity; Region: Abi; pfam02517 373903004361 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 373903004362 DNA polymerase IV; Reviewed; Region: PRK03103 373903004363 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 373903004364 active site 373903004365 DNA binding site [nucleotide binding] 373903004366 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 373903004367 active site 373903004368 motif I; other site 373903004369 motif II; other site 373903004370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 373903004371 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 373903004372 active site 373903004373 phosphorylation site [posttranslational modification] 373903004374 intermolecular recognition site; other site 373903004375 dimerization interface [polypeptide binding]; other site 373903004376 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 373903004377 DNA binding site [nucleotide binding] 373903004378 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 373903004379 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 373903004380 dimerization interface [polypeptide binding]; other site 373903004381 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 373903004382 dimer interface [polypeptide binding]; other site 373903004383 phosphorylation site [posttranslational modification] 373903004384 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 373903004385 ATP binding site [chemical binding]; other site 373903004386 Mg2+ binding site [ion binding]; other site 373903004387 G-X-G motif; other site 373903004388 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 373903004389 dimer interface [polypeptide binding]; other site 373903004390 LysE type translocator; Region: LysE; pfam01810 373903004391 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 373903004392 putative homodimer interface [polypeptide binding]; other site 373903004393 putative homotetramer interface [polypeptide binding]; other site 373903004394 putative allosteric switch controlling residues; other site 373903004395 putative metal binding site [ion binding]; other site 373903004396 putative homodimer-homodimer interface [polypeptide binding]; other site 373903004397 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 373903004398 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 373903004399 metal-binding site [ion binding] 373903004400 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 373903004401 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 373903004402 G1 box; other site 373903004403 GTP/Mg2+ binding site [chemical binding]; other site 373903004404 Switch I region; other site 373903004405 G2 box; other site 373903004406 G3 box; other site 373903004407 Switch II region; other site 373903004408 G4 box; other site 373903004409 G5 box; other site 373903004410 Nucleoside recognition; Region: Gate; pfam07670 373903004411 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 373903004412 Nucleoside recognition; Region: Gate; pfam07670 373903004413 FeoA domain; Region: FeoA; pfam04023 373903004414 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 373903004415 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 373903004416 HIGH motif; other site 373903004417 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 373903004418 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 373903004419 active site 373903004420 KMSKS motif; other site 373903004421 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 373903004422 tRNA binding surface [nucleotide binding]; other site 373903004423 T-box leader 373903004424 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 373903004425 Transcriptional regulator [Transcription]; Region: LytR; COG1316 373903004426 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 373903004427 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903004428 Zn2+ binding site [ion binding]; other site 373903004429 Mg2+ binding site [ion binding]; other site 373903004430 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 373903004431 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 373903004432 active site 373903004433 (T/H)XGH motif; other site 373903004434 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 373903004435 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 373903004436 putative substrate translocation pore; other site 373903004437 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 373903004438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903004439 Coenzyme A binding pocket [chemical binding]; other site 373903004440 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 373903004441 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 373903004442 GTPase RsgA; Reviewed; Region: PRK01889 373903004443 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 373903004444 RNA binding site [nucleotide binding]; other site 373903004445 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 373903004446 GTPase/Zn-binding domain interface [polypeptide binding]; other site 373903004447 GTP/Mg2+ binding site [chemical binding]; other site 373903004448 G4 box; other site 373903004449 G5 box; other site 373903004450 G1 box; other site 373903004451 Switch I region; other site 373903004452 G2 box; other site 373903004453 G3 box; other site 373903004454 Switch II region; other site 373903004455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903004456 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 373903004457 Coenzyme A binding pocket [chemical binding]; other site 373903004458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903004459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903004460 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 373903004461 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 373903004462 Phosphotransferase enzyme family; Region: APH; pfam01636 373903004463 active site 373903004464 ATP binding site [chemical binding]; other site 373903004465 substrate binding site [chemical binding]; other site 373903004466 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 373903004467 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 373903004468 S-adenosylmethionine binding site [chemical binding]; other site 373903004469 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 373903004470 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 373903004471 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 373903004472 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 373903004473 FeS/SAM binding site; other site 373903004474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903004475 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 373903004476 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 373903004477 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 373903004478 potential frameshift: common BLAST hit: gi|193215290|ref|YP_001996489.1| NADPH-dependent FMN reductase 373903004479 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 373903004480 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 373903004481 AAA domain; Region: AAA_17; pfam13207 373903004482 PIN domain; Region: PIN_3; pfam13470 373903004483 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 373903004484 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 373903004485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 373903004486 Transposase; Region: HTH_Tnp_1; pfam01527 373903004487 putative transposase OrfB; Reviewed; Region: PHA02517 373903004488 HTH-like domain; Region: HTH_21; pfam13276 373903004489 Integrase core domain; Region: rve; pfam00665 373903004490 Integrase core domain; Region: rve_3; pfam13683 373903004491 CAAX protease self-immunity; Region: Abi; pfam02517 373903004492 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 373903004493 S-adenosylmethionine binding site [chemical binding]; other site 373903004494 HEPN domain; Region: HEPN; pfam05168 373903004495 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 373903004496 active site 373903004497 NTP binding site [chemical binding]; other site 373903004498 metal binding triad [ion binding]; metal-binding site 373903004499 antibiotic binding site [chemical binding]; other site 373903004500 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 373903004501 Chloramphenicol acetyltransferase; Region: CAT; smart01059 373903004502 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 373903004503 Fe-S cluster binding site [ion binding]; other site 373903004504 pullulanase, type I; Region: pulA_typeI; TIGR02104 373903004505 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 373903004506 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 373903004507 Ca binding site [ion binding]; other site 373903004508 active site 373903004509 catalytic site [active] 373903004510 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 373903004511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903004512 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903004513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903004514 Helix-turn-helix domain; Region: HTH_17; pfam12728 373903004515 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_cladeB; cd00884 373903004516 active site clefts [active] 373903004517 zinc binding site [ion binding]; other site 373903004518 dimer interface [polypeptide binding]; other site 373903004519 Amidohydrolase; Region: Amidohydro_2; pfam04909 373903004520 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_37; cd04696 373903004521 nudix motif; other site 373903004522 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 373903004523 Predicted amidohydrolase [General function prediction only]; Region: COG0388 373903004524 active site 373903004525 catalytic triad [active] 373903004526 dimer interface [polypeptide binding]; other site 373903004527 AAA domain; Region: AAA_17; pfam13207 373903004528 AAA domain; Region: AAA_18; pfam13238 373903004529 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 373903004530 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 373903004531 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 373903004532 active site 373903004533 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 373903004534 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 373903004535 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 373903004536 Lamin Tail Domain; Region: LTD; pfam00932 373903004537 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 373903004538 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 373903004539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903004540 Walker A/P-loop; other site 373903004541 ATP binding site [chemical binding]; other site 373903004542 Q-loop/lid; other site 373903004543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 373903004544 ABC transporter; Region: ABC_tran_2; pfam12848 373903004545 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 373903004546 ABC transporter; Region: ABC_tran_2; pfam12848 373903004547 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903004548 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903004549 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 373903004550 GTPase CgtA; Reviewed; Region: obgE; PRK12297 373903004551 GTP1/OBG; Region: GTP1_OBG; pfam01018 373903004552 Obg GTPase; Region: Obg; cd01898 373903004553 G1 box; other site 373903004554 GTP/Mg2+ binding site [chemical binding]; other site 373903004555 Switch I region; other site 373903004556 G2 box; other site 373903004557 G3 box; other site 373903004558 Switch II region; other site 373903004559 G4 box; other site 373903004560 G5 box; other site 373903004561 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 373903004562 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 373903004563 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 373903004564 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 373903004565 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 373903004566 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 373903004567 homodimer interface [polypeptide binding]; other site 373903004568 oligonucleotide binding site [chemical binding]; other site 373903004569 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 373903004570 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 373903004571 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 373903004572 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 373903004573 B12 binding site [chemical binding]; other site 373903004574 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 373903004575 FeS/SAM binding site; other site 373903004576 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 373903004577 Peptidase family M50; Region: Peptidase_M50; pfam02163 373903004578 active site 373903004579 putative substrate binding region [chemical binding]; other site 373903004580 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 373903004581 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 373903004582 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 373903004583 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 373903004584 Switch I; other site 373903004585 Switch II; other site 373903004586 septum formation inhibitor; Reviewed; Region: minC; PRK00513 373903004587 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 373903004588 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 373903004589 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 373903004590 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 373903004591 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 373903004592 rod shape-determining protein MreC; Provisional; Region: PRK13922 373903004593 rod shape-determining protein MreC; Region: MreC; pfam04085 373903004594 rod shape-determining protein MreB; Provisional; Region: PRK13927 373903004595 MreB and similar proteins; Region: MreB_like; cd10225 373903004596 nucleotide binding site [chemical binding]; other site 373903004597 Mg binding site [ion binding]; other site 373903004598 putative protofilament interaction site [polypeptide binding]; other site 373903004599 RodZ interaction site [polypeptide binding]; other site 373903004600 hypothetical protein; Reviewed; Region: PRK00024 373903004601 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 373903004602 MPN+ (JAMM) motif; other site 373903004603 Zinc-binding site [ion binding]; other site 373903004604 Maf-like protein; Region: Maf; pfam02545 373903004605 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 373903004606 active site 373903004607 dimer interface [polypeptide binding]; other site 373903004608 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 373903004609 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 373903004610 ApbE family; Region: ApbE; pfam02424 373903004611 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 373903004612 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903004613 Ferredoxin [Energy production and conversion]; Region: COG1146 373903004614 4Fe-4S binding domain; Region: Fer4; pfam00037 373903004615 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903004616 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903004617 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903004618 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903004619 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 373903004620 electron transport complex RsxE subunit; Provisional; Region: PRK12405 373903004621 FMN-binding domain; Region: FMN_bind; cl01081 373903004622 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 373903004623 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 373903004624 SLBB domain; Region: SLBB; pfam10531 373903004625 Sporulation related domain; Region: SPOR; pfam05036 373903004626 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 373903004627 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 373903004628 Divergent PAP2 family; Region: DUF212; pfam02681 373903004629 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 373903004630 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 373903004631 active site 373903004632 NTP binding site [chemical binding]; other site 373903004633 metal binding triad [ion binding]; metal-binding site 373903004634 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 373903004635 cell division protein FtsA; Region: ftsA; TIGR01174 373903004636 Cell division protein FtsA; Region: FtsA; smart00842 373903004637 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903004638 nucleotide binding site [chemical binding]; other site 373903004639 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 373903004640 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 373903004641 TPP-binding site [chemical binding]; other site 373903004642 dimer interface [polypeptide binding]; other site 373903004643 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 373903004644 PYR/PP interface [polypeptide binding]; other site 373903004645 dimer interface [polypeptide binding]; other site 373903004646 TPP binding site [chemical binding]; other site 373903004647 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 373903004648 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 373903004649 active site 373903004650 catalytic site [active] 373903004651 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 373903004652 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 373903004653 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 373903004654 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 373903004655 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 373903004656 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 373903004657 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 373903004658 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 373903004659 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 373903004660 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 373903004661 S-adenosylmethionine binding site [chemical binding]; other site 373903004662 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 373903004663 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 373903004664 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 373903004665 catalytic residue [active] 373903004666 putative FPP diphosphate binding site; other site 373903004667 putative FPP binding hydrophobic cleft; other site 373903004668 dimer interface [polypeptide binding]; other site 373903004669 putative IPP diphosphate binding site; other site 373903004670 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 373903004671 dimerization domain swap beta strand [polypeptide binding]; other site 373903004672 regulatory protein interface [polypeptide binding]; other site 373903004673 active site 373903004674 regulatory phosphorylation site [posttranslational modification]; other site 373903004675 EamA-like transporter family; Region: EamA; pfam00892 373903004676 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903004677 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903004678 DNA binding site [nucleotide binding] 373903004679 domain linker motif; other site 373903004680 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903004681 dimerization interface [polypeptide binding]; other site 373903004682 ligand binding site [chemical binding]; other site 373903004683 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 373903004684 dimerization interface [polypeptide binding]; other site 373903004685 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903004686 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903004687 dimer interface [polypeptide binding]; other site 373903004688 putative CheW interface [polypeptide binding]; other site 373903004689 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903004690 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 373903004691 dimer interface [polypeptide binding]; other site 373903004692 conserved gate region; other site 373903004693 putative PBP binding loops; other site 373903004694 ABC-ATPase subunit interface; other site 373903004695 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 373903004696 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 373903004697 dimer interface [polypeptide binding]; other site 373903004698 conserved gate region; other site 373903004699 putative PBP binding loops; other site 373903004700 ABC-ATPase subunit interface; other site 373903004701 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903004702 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903004703 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 373903004704 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 373903004705 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 373903004706 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 373903004707 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 373903004708 UbiA prenyltransferase family; Region: UbiA; pfam01040 373903004709 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 373903004710 MPT binding site; other site 373903004711 trimer interface [polypeptide binding]; other site 373903004712 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 373903004713 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 373903004714 active site 373903004715 HIGH motif; other site 373903004716 nucleotide binding site [chemical binding]; other site 373903004717 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 373903004718 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 373903004719 active site 373903004720 KMSKS motif; other site 373903004721 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 373903004722 tRNA binding surface [nucleotide binding]; other site 373903004723 anticodon binding site; other site 373903004724 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 373903004725 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 373903004726 ATP binding site [chemical binding]; other site 373903004727 Mg2+ binding site [ion binding]; other site 373903004728 G-X-G motif; other site 373903004729 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 373903004730 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 373903004731 putative dimer interface [polypeptide binding]; other site 373903004732 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 373903004733 RNase_H superfamily; Region: RNase_H_2; pfam13482 373903004734 active site 373903004735 substrate binding site [chemical binding]; other site 373903004736 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903004737 binding surface 373903004738 TPR motif; other site 373903004739 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 373903004740 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 373903004741 ATP binding site [chemical binding]; other site 373903004742 putative Mg++ binding site [ion binding]; other site 373903004743 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 373903004744 nucleotide binding region [chemical binding]; other site 373903004745 ATP-binding site [chemical binding]; other site 373903004746 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 373903004747 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 373903004748 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 373903004749 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 373903004750 EDD domain protein, DegV family; Region: DegV; TIGR00762 373903004751 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 373903004752 Low molecular weight phosphatase family; Region: LMWPc; cd00115 373903004753 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 373903004754 active site 373903004755 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 373903004756 dimerization interface [polypeptide binding]; other site 373903004757 putative DNA binding site [nucleotide binding]; other site 373903004758 putative Zn2+ binding site [ion binding]; other site 373903004759 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903004760 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903004761 Predicted permease; Region: DUF318; cl17795 373903004762 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 373903004763 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 373903004764 trehalose synthase; Region: treS_nterm; TIGR02456 373903004765 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 373903004766 Ca binding site [ion binding]; other site 373903004767 active site 373903004768 catalytic site [active] 373903004769 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 373903004770 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 373903004771 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 373903004772 ABC-ATPase subunit interface; other site 373903004773 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 373903004774 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 373903004775 Walker A/P-loop; other site 373903004776 ATP binding site [chemical binding]; other site 373903004777 Q-loop/lid; other site 373903004778 ABC transporter signature motif; other site 373903004779 Walker B; other site 373903004780 D-loop; other site 373903004781 H-loop/switch region; other site 373903004782 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; cl17432 373903004783 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 373903004784 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 373903004785 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 373903004786 inhibitor-cofactor binding pocket; inhibition site 373903004787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903004788 catalytic residue [active] 373903004789 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 373903004790 Peptidase family U32; Region: Peptidase_U32; pfam01136 373903004791 Peptidase family U32; Region: Peptidase_U32; pfam01136 373903004792 aromatic acid decarboxylase; Validated; Region: PRK05920 373903004793 Flavoprotein; Region: Flavoprotein; pfam02441 373903004794 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 373903004795 UbiA prenyltransferase family; Region: UbiA; pfam01040 373903004796 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 373903004797 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 373903004798 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 373903004799 substrate binding pocket [chemical binding]; other site 373903004800 chain length determination region; other site 373903004801 substrate-Mg2+ binding site; other site 373903004802 catalytic residues [active] 373903004803 aspartate-rich region 1; other site 373903004804 active site lid residues [active] 373903004805 aspartate-rich region 2; other site 373903004806 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 373903004807 ApbE family; Region: ApbE; pfam02424 373903004808 FMN-binding domain; Region: FMN_bind; cl01081 373903004809 FMN-binding domain; Region: FMN_bind; pfam04205 373903004810 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 373903004811 TQO small subunit DoxD; Region: DoxD; pfam04173 373903004812 GAF domain; Region: GAF_2; pfam13185 373903004813 GAF domain; Region: GAF_3; pfam13492 373903004814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 373903004815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 373903004816 metal binding site [ion binding]; metal-binding site 373903004817 active site 373903004818 I-site; other site 373903004819 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 373903004820 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 373903004821 S-adenosylmethionine binding site [chemical binding]; other site 373903004822 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 373903004823 G1 box; other site 373903004824 GTP/Mg2+ binding site [chemical binding]; other site 373903004825 Switch I region; other site 373903004826 G2 box; other site 373903004827 G3 box; other site 373903004828 Switch II region; other site 373903004829 G4 box; other site 373903004830 G5 box; other site 373903004831 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 373903004832 Found in ATP-dependent protease La (LON); Region: LON; smart00464 373903004833 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 373903004834 Walker A motif; other site 373903004835 ATP binding site [chemical binding]; other site 373903004836 Walker B motif; other site 373903004837 arginine finger; other site 373903004838 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903004839 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 373903004840 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 373903004841 Walker A motif; other site 373903004842 ATP binding site [chemical binding]; other site 373903004843 Walker B motif; other site 373903004844 arginine finger; other site 373903004845 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903004846 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 373903004847 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 373903004848 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 373903004849 Walker A motif; other site 373903004850 ATP binding site [chemical binding]; other site 373903004851 Walker B motif; other site 373903004852 arginine finger; other site 373903004853 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 373903004854 Clp protease; Region: CLP_protease; pfam00574 373903004855 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 373903004856 oligomer interface [polypeptide binding]; other site 373903004857 active site residues [active] 373903004858 trigger factor; Provisional; Region: tig; PRK01490 373903004859 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 373903004860 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 373903004861 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 373903004862 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 373903004863 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 373903004864 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 373903004865 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 373903004866 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 373903004867 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 373903004868 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 373903004869 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 373903004870 potential frameshift: common BLAST hit: gi|187934291|ref|YP_001886240.1| peptidase, S41 family 373903004871 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 373903004872 Active site serine [active] 373903004873 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 373903004874 Ligand binding site; other site 373903004875 Putative Catalytic site; other site 373903004876 DXD motif; other site 373903004877 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 373903004878 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 373903004879 active site 373903004880 catalytic site [active] 373903004881 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 373903004882 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 373903004883 NifU-like domain; Region: NifU; cl00484 373903004884 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903004885 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 373903004886 dimer interface [polypeptide binding]; other site 373903004887 conserved gate region; other site 373903004888 putative PBP binding loops; other site 373903004889 ABC-ATPase subunit interface; other site 373903004890 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903004891 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 373903004892 dimer interface [polypeptide binding]; other site 373903004893 conserved gate region; other site 373903004894 putative PBP binding loops; other site 373903004895 ABC-ATPase subunit interface; other site 373903004896 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903004897 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 373903004898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903004899 DNA-binding site [nucleotide binding]; DNA binding site 373903004900 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 373903004901 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903004902 ligand binding site [chemical binding]; other site 373903004903 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 373903004904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 373903004905 putative substrate translocation pore; other site 373903004906 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 373903004907 catalytic residues [active] 373903004908 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 373903004909 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 373903004910 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 373903004911 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 373903004912 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 373903004913 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 373903004914 RNA binding site [nucleotide binding]; other site 373903004915 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 373903004916 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 373903004917 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 373903004918 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 373903004919 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 373903004920 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 373903004921 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 373903004922 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 373903004923 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 373903004924 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 373903004925 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 373903004926 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 373903004927 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 373903004928 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 373903004929 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 373903004930 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 373903004931 Family of unknown function (DUF694); Region: DUF694; pfam05107 373903004932 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cd09730 373903004933 Predicted transcriptional regulator [Transcription]; Region: COG2378 373903004934 HTH domain; Region: HTH_11; pfam08279 373903004935 WYL domain; Region: WYL; pfam13280 373903004936 Protein of unknown function (DUF964); Region: DUF964; pfam06133 373903004937 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 373903004938 beta-galactosidase; Region: BGL; TIGR03356 373903004939 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 373903004940 HSP70 interaction site [polypeptide binding]; other site 373903004941 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 373903004942 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 373903004943 Walker A/P-loop; other site 373903004944 ATP binding site [chemical binding]; other site 373903004945 Q-loop/lid; other site 373903004946 ABC transporter signature motif; other site 373903004947 Walker B; other site 373903004948 D-loop; other site 373903004949 H-loop/switch region; other site 373903004950 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 373903004951 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 373903004952 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 373903004953 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 373903004954 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 373903004955 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 373903004956 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 373903004957 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 373903004958 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 373903004959 B12 binding site [chemical binding]; other site 373903004960 cobalt ligand [ion binding]; other site 373903004961 Sensory domain found in PocR; Region: PocR; pfam10114 373903004962 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 373903004963 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903004964 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 373903004965 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903004966 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 373903004967 active site 373903004968 dimerization interface [polypeptide binding]; other site 373903004969 ribonuclease PH; Reviewed; Region: rph; PRK00173 373903004970 Ribonuclease PH; Region: RNase_PH_bact; cd11362 373903004971 hexamer interface [polypeptide binding]; other site 373903004972 active site 373903004973 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 373903004974 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 373903004975 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 373903004976 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 373903004977 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 373903004978 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 373903004979 dimer interface [polypeptide binding]; other site 373903004980 active site 373903004981 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 373903004982 substrate binding site [chemical binding]; other site 373903004983 B12 cofactor binding site [chemical binding]; other site 373903004984 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 373903004985 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 373903004986 MutL protein; Region: MutL; pfam13941 373903004987 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 373903004988 B12 binding site [chemical binding]; other site 373903004989 heterodimer interface [polypeptide binding]; other site 373903004990 cobalt ligand [ion binding]; other site 373903004991 Predicted transcriptional regulators [Transcription]; Region: COG1725 373903004992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903004993 DNA-binding site [nucleotide binding]; DNA binding site 373903004994 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 373903004995 Sporulation and spore germination; Region: Germane; pfam10646 373903004996 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 373903004997 AMIN domain; Region: AMIN; pfam11741 373903004998 AMIN domain; Region: AMIN; pfam11741 373903004999 AMIN domain; Region: AMIN; pfam11741 373903005000 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 373903005001 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 373903005002 active site 373903005003 metal binding site [ion binding]; metal-binding site 373903005004 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 373903005005 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903005006 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 373903005007 Protein of unknown function (DUF327); Region: DUF327; pfam03885 373903005008 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903005009 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 373903005010 dimer interface [polypeptide binding]; other site 373903005011 conserved gate region; other site 373903005012 putative PBP binding loops; other site 373903005013 ABC-ATPase subunit interface; other site 373903005014 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 373903005015 dimer interface [polypeptide binding]; other site 373903005016 conserved gate region; other site 373903005017 putative PBP binding loops; other site 373903005018 ABC-ATPase subunit interface; other site 373903005019 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903005020 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903005021 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 373903005022 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 373903005023 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 373903005024 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903005025 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903005026 DNA binding site [nucleotide binding] 373903005027 domain linker motif; other site 373903005028 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903005029 dimerization interface [polypeptide binding]; other site 373903005030 ligand binding site [chemical binding]; other site 373903005031 Protein of unknown function (DUF503); Region: DUF503; pfam04456 373903005032 Rubrerythrin [Energy production and conversion]; Region: COG1592 373903005033 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 373903005034 diiron binding motif [ion binding]; other site 373903005035 PGDYG protein; Region: PGDYG; pfam14083 373903005036 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 373903005037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903005038 Q-loop/lid; other site 373903005039 ABC transporter signature motif; other site 373903005040 Walker B; other site 373903005041 D-loop; other site 373903005042 H-loop/switch region; other site 373903005043 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 373903005044 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 373903005045 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 373903005046 Walker A motif; other site 373903005047 ATP binding site [chemical binding]; other site 373903005048 Walker B motif; other site 373903005049 arginine finger; other site 373903005050 C2 domain; Region: C2; cl14603 373903005051 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 373903005052 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 373903005053 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 373903005054 SmpB-tmRNA interface; other site 373903005055 ribonuclease R; Region: RNase_R; TIGR02063 373903005056 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 373903005057 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 373903005058 RNB domain; Region: RNB; pfam00773 373903005059 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 373903005060 RNA binding site [nucleotide binding]; other site 373903005061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903005062 Zn2+ binding site [ion binding]; other site 373903005063 Mg2+ binding site [ion binding]; other site 373903005064 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 373903005065 CoenzymeA binding site [chemical binding]; other site 373903005066 subunit interaction site [polypeptide binding]; other site 373903005067 PHB binding site; other site 373903005068 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 373903005069 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 373903005070 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 373903005071 enolase; Provisional; Region: eno; PRK00077 373903005072 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 373903005073 dimer interface [polypeptide binding]; other site 373903005074 metal binding site [ion binding]; metal-binding site 373903005075 substrate binding pocket [chemical binding]; other site 373903005076 phosphoglyceromutase; Provisional; Region: PRK05434 373903005077 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 373903005078 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 373903005079 triosephosphate isomerase; Provisional; Region: PRK14567 373903005080 substrate binding site [chemical binding]; other site 373903005081 dimer interface [polypeptide binding]; other site 373903005082 catalytic triad [active] 373903005083 Phosphoglycerate kinase; Region: PGK; pfam00162 373903005084 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 373903005085 substrate binding site [chemical binding]; other site 373903005086 hinge regions; other site 373903005087 ADP binding site [chemical binding]; other site 373903005088 catalytic site [active] 373903005089 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 373903005090 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 373903005091 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 373903005092 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 373903005093 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 373903005094 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 373903005095 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 373903005096 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 373903005097 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 373903005098 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 373903005099 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 373903005100 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 373903005101 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 373903005102 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 373903005103 phosphate binding site [ion binding]; other site 373903005104 putative substrate binding pocket [chemical binding]; other site 373903005105 dimer interface [polypeptide binding]; other site 373903005106 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 373903005107 AAA domain; Region: AAA_18; pfam13238 373903005108 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 373903005109 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 373903005110 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 373903005111 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 373903005112 active site 373903005113 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 373903005114 substrate binding pocket [chemical binding]; other site 373903005115 substrate-Mg2+ binding site; other site 373903005116 aspartate-rich region 1; other site 373903005117 aspartate-rich region 2; other site 373903005118 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 373903005119 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903005120 Zn2+ binding site [ion binding]; other site 373903005121 Mg2+ binding site [ion binding]; other site 373903005122 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 373903005123 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 373903005124 ligand binding site [chemical binding]; other site 373903005125 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 373903005126 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 373903005127 putative FMN binding site [chemical binding]; other site 373903005128 Uncharacterized conserved protein [Function unknown]; Region: COG3461 373903005129 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 373903005130 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 373903005131 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 373903005132 active site 373903005133 Substrate binding site; other site 373903005134 Mg++ binding site; other site 373903005135 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 373903005136 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 373903005137 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 373903005138 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 373903005139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903005140 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 373903005141 Uncharacterized conserved protein [Function unknown]; Region: COG1543 373903005142 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 373903005143 active site 373903005144 substrate binding site [chemical binding]; other site 373903005145 catalytic site [active] 373903005146 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 373903005147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 373903005148 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 373903005149 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 373903005150 putative ligand binding site [chemical binding]; other site 373903005151 HPr kinase/phosphorylase; Provisional; Region: PRK05428 373903005152 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 373903005153 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 373903005154 Hpr binding site; other site 373903005155 active site 373903005156 homohexamer subunit interaction site [polypeptide binding]; other site 373903005157 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 373903005158 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903005159 nucleotide binding site [chemical binding]; other site 373903005160 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 373903005161 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 373903005162 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 373903005163 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 373903005164 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 373903005165 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 373903005166 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 373903005167 Radical SAM superfamily; Region: Radical_SAM; pfam04055 373903005168 FeS/SAM binding site; other site 373903005169 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 373903005170 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 373903005171 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 373903005172 active site 373903005173 motif I; other site 373903005174 motif II; other site 373903005175 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 373903005176 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 373903005177 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 373903005178 dimer interface [polypeptide binding]; other site 373903005179 active site 373903005180 glycine-pyridoxal phosphate binding site [chemical binding]; other site 373903005181 folate binding site [chemical binding]; other site 373903005182 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 373903005183 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 373903005184 NAD binding site [chemical binding]; other site 373903005185 dimer interface [polypeptide binding]; other site 373903005186 substrate binding site [chemical binding]; other site 373903005187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 373903005188 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 373903005189 4Fe-4S binding domain; Region: Fer4; cl02805 373903005190 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 373903005191 homodimer interface [polypeptide binding]; other site 373903005192 maltodextrin glucosidase; Provisional; Region: PRK10785 373903005193 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 373903005194 active site 373903005195 homodimer interface [polypeptide binding]; other site 373903005196 catalytic site [active] 373903005197 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 373903005198 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903005199 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 373903005200 dimer interface [polypeptide binding]; other site 373903005201 conserved gate region; other site 373903005202 putative PBP binding loops; other site 373903005203 ABC-ATPase subunit interface; other site 373903005204 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 373903005205 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 373903005206 dimer interface [polypeptide binding]; other site 373903005207 conserved gate region; other site 373903005208 putative PBP binding loops; other site 373903005209 ABC-ATPase subunit interface; other site 373903005210 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 373903005211 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903005212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903005213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903005214 DNA binding site [nucleotide binding] 373903005215 domain linker motif; other site 373903005216 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903005217 dimerization interface [polypeptide binding]; other site 373903005218 ligand binding site [chemical binding]; other site 373903005219 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 373903005220 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 373903005221 GIY-YIG motif/motif A; other site 373903005222 active site 373903005223 catalytic site [active] 373903005224 putative DNA binding site [nucleotide binding]; other site 373903005225 metal binding site [ion binding]; metal-binding site 373903005226 UvrB/uvrC motif; Region: UVR; pfam02151 373903005227 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 373903005228 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 373903005229 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 373903005230 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 373903005231 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 373903005232 excinuclease ABC subunit B; Provisional; Region: PRK05298 373903005233 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 373903005234 ATP binding site [chemical binding]; other site 373903005235 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 373903005236 nucleotide binding region [chemical binding]; other site 373903005237 ATP-binding site [chemical binding]; other site 373903005238 Ultra-violet resistance protein B; Region: UvrB; pfam12344 373903005239 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 373903005240 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 373903005241 S-adenosylmethionine binding site [chemical binding]; other site 373903005242 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 373903005243 NlpC/P60 family; Region: NLPC_P60; cl17555 373903005244 Putative cyclase; Region: Cyclase; cl00814 373903005245 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 373903005246 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 373903005247 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 373903005248 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 373903005249 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 373903005250 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 373903005251 domain_subunit interface; other site 373903005252 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 373903005253 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 373903005254 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 373903005255 active site 373903005256 FMN binding site [chemical binding]; other site 373903005257 substrate binding site [chemical binding]; other site 373903005258 3Fe-4S cluster binding site [ion binding]; other site 373903005259 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 373903005260 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 373903005261 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 373903005262 putative active site [active] 373903005263 Transcriptional regulator [Transcription]; Region: IclR; COG1414 373903005264 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 373903005265 putative DNA binding site [nucleotide binding]; other site 373903005266 putative Zn2+ binding site [ion binding]; other site 373903005267 Bacterial transcriptional regulator; Region: IclR; pfam01614 373903005268 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 373903005269 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 373903005270 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 373903005271 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 373903005272 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 373903005273 putative L-serine binding site [chemical binding]; other site 373903005274 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 373903005275 C-terminal peptidase (prc); Region: prc; TIGR00225 373903005276 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 373903005277 protein binding site [polypeptide binding]; other site 373903005278 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 373903005279 Catalytic dyad [active] 373903005280 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 373903005281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903005282 Walker A/P-loop; other site 373903005283 ATP binding site [chemical binding]; other site 373903005284 Q-loop/lid; other site 373903005285 ABC transporter signature motif; other site 373903005286 Walker B; other site 373903005287 D-loop; other site 373903005288 H-loop/switch region; other site 373903005289 Uncharacterized conserved protein [Function unknown]; Region: COG1284 373903005290 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 373903005291 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 373903005292 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 373903005293 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 373903005294 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 373903005295 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 373903005296 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 373903005297 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 373903005298 peptide chain release factor 2; Provisional; Region: PRK05589 373903005299 PCRF domain; Region: PCRF; pfam03462 373903005300 RF-1 domain; Region: RF-1; pfam00472 373903005301 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 373903005302 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 373903005303 ATP binding site [chemical binding]; other site 373903005304 putative Mg++ binding site [ion binding]; other site 373903005305 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 373903005306 nucleotide binding region [chemical binding]; other site 373903005307 helicase superfamily c-terminal domain; Region: HELICc; smart00490 373903005308 ATP-binding site [chemical binding]; other site 373903005309 SEC-C motif; Region: SEC-C; pfam02810 373903005310 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 373903005311 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 373903005312 phosphate binding site [ion binding]; other site 373903005313 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 373903005314 30S subunit binding site; other site 373903005315 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 373903005316 DNA-binding site [nucleotide binding]; DNA binding site 373903005317 RNA-binding motif; other site 373903005318 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 373903005319 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903005320 active site 373903005321 RNA polymerase factor sigma-70; Validated; Region: PRK08295 373903005322 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903005323 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 373903005324 DNA binding residues [nucleotide binding] 373903005325 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 373903005326 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 373903005327 active site 373903005328 nucleotide binding site [chemical binding]; other site 373903005329 HIGH motif; other site 373903005330 KMSKS motif; other site 373903005331 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 373903005332 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903005333 putative ribose interaction site [chemical binding]; other site 373903005334 putative ADP binding site [chemical binding]; other site 373903005335 Sporulation related domain; Region: SPOR; pfam05036 373903005336 Stage II sporulation protein; Region: SpoIID; pfam08486 373903005337 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 373903005338 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 373903005339 Rod binding protein; Region: Rod-binding; pfam10135 373903005340 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 373903005341 Flagellar P-ring protein; Region: FlgI; pfam02119 373903005342 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 373903005343 Flagellar L-ring protein; Region: FlgH; pfam02107 373903005344 SAF-like; Region: SAF_2; pfam13144 373903005345 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 373903005346 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 373903005347 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 373903005348 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 373903005349 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 373903005350 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 373903005351 YceG-like family; Region: YceG; pfam02618 373903005352 Protein of unknown function (DUF342); Region: DUF342; pfam03961 373903005353 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 373903005354 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903005355 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 373903005356 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 373903005357 DNA binding residues [nucleotide binding] 373903005358 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 373903005359 Flagellar protein YcgR; Region: YcgR_2; pfam12945 373903005360 PilZ domain; Region: PilZ; pfam07238 373903005361 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 373903005362 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 373903005363 P-loop; other site 373903005364 ADP binding residues [chemical binding]; other site 373903005365 Switch I; other site 373903005366 Switch II; other site 373903005367 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 373903005368 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 373903005369 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 373903005370 FHIPEP family; Region: FHIPEP; pfam00771 373903005371 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 373903005372 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 373903005373 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 373903005374 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 373903005375 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 373903005376 flagellar motor switch protein; Validated; Region: PRK08119 373903005377 CheC-like family; Region: CheC; pfam04509 373903005378 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 373903005379 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 373903005380 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 373903005381 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 373903005382 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 373903005383 flagellar motor protein MotS; Reviewed; Region: PRK06925 373903005384 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 373903005385 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 373903005386 ligand binding site [chemical binding]; other site 373903005387 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 373903005388 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 373903005389 Flagellar protein (FlbD); Region: FlbD; pfam06289 373903005390 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 373903005391 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 373903005392 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 373903005393 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 373903005394 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 373903005395 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 373903005396 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 373903005397 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 373903005398 Uncharacterized conserved protein [Function unknown]; Region: COG3334 373903005399 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 373903005400 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 373903005401 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 373903005402 Walker A motif/ATP binding site; other site 373903005403 Walker B motif; other site 373903005404 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 373903005405 Flagellar assembly protein FliH; Region: FliH; pfam02108 373903005406 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 373903005407 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 373903005408 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 373903005409 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 373903005410 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 373903005411 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 373903005412 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 373903005413 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 373903005414 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 373903005415 Response regulator receiver domain; Region: Response_reg; pfam00072 373903005416 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 373903005417 active site 373903005418 phosphorylation site [posttranslational modification] 373903005419 intermolecular recognition site; other site 373903005420 dimerization interface [polypeptide binding]; other site 373903005421 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 373903005422 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 373903005423 active site 373903005424 homodimer interface [polypeptide binding]; other site 373903005425 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 373903005426 NeuB family; Region: NeuB; pfam03102 373903005427 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 373903005428 NeuB binding interface [polypeptide binding]; other site 373903005429 putative substrate binding site [chemical binding]; other site 373903005430 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 373903005431 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 373903005432 putative trimer interface [polypeptide binding]; other site 373903005433 putative CoA binding site [chemical binding]; other site 373903005434 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 373903005435 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 373903005436 inhibitor-cofactor binding pocket; inhibition site 373903005437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903005438 catalytic residue [active] 373903005439 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 373903005440 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 373903005441 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 373903005442 NAD(P) binding site [chemical binding]; other site 373903005443 homodimer interface [polypeptide binding]; other site 373903005444 substrate binding site [chemical binding]; other site 373903005445 active site 373903005446 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 373903005447 ligand binding site; other site 373903005448 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 373903005449 NeuB family; Region: NeuB; pfam03102 373903005450 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 373903005451 NeuB binding interface [polypeptide binding]; other site 373903005452 putative substrate binding site [chemical binding]; other site 373903005453 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 373903005454 Flagellar protein FliS; Region: FliS; cl00654 373903005455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 373903005456 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 373903005457 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 373903005458 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 373903005459 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 373903005460 FlaG protein; Region: FlaG; pfam03646 373903005461 flagellin; Provisional; Region: PRK12804 373903005462 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 373903005463 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 373903005464 Global regulator protein family; Region: CsrA; cl00670 373903005465 FliW protein; Region: FliW; pfam02623 373903005466 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 373903005467 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 373903005468 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 373903005469 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 373903005470 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 373903005471 FlgN protein; Region: FlgN; pfam05130 373903005472 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 373903005473 flagellar operon protein TIGR03826; Region: YvyF 373903005474 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 373903005475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903005476 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 373903005477 putative ADP-binding pocket [chemical binding]; other site 373903005478 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 373903005479 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 373903005480 putative active site [active] 373903005481 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 373903005482 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 373903005483 inhibitor-cofactor binding pocket; inhibition site 373903005484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903005485 catalytic residue [active] 373903005486 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 373903005487 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 373903005488 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]; Region: COG1031 373903005489 Helix-hairpin-helix motif; Region: HHH; pfam00633 373903005490 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 373903005491 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 373903005492 NAD binding site [chemical binding]; other site 373903005493 ligand binding site [chemical binding]; other site 373903005494 catalytic site [active] 373903005495 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 373903005496 Uncharacterized conserved protein [Function unknown]; Region: COG3379 373903005497 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 373903005498 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 373903005499 Uncharacterized conserved protein [Function unknown]; Region: COG3379 373903005500 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 373903005501 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 373903005502 active site 373903005503 FMN binding site [chemical binding]; other site 373903005504 substrate binding site [chemical binding]; other site 373903005505 3Fe-4S cluster binding site [ion binding]; other site 373903005506 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 373903005507 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 373903005508 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 373903005509 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 373903005510 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 373903005511 NADP binding site [chemical binding]; other site 373903005512 active site 373903005513 putative substrate binding site [chemical binding]; other site 373903005514 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 373903005515 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 373903005516 active site 373903005517 tetramer interface; other site 373903005518 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 373903005519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903005520 Zn2+ binding site [ion binding]; other site 373903005521 Mg2+ binding site [ion binding]; other site 373903005522 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 373903005523 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 373903005524 active site 373903005525 substrate binding site [chemical binding]; other site 373903005526 metal binding site [ion binding]; metal-binding site 373903005527 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 373903005528 S-layer homology domain; Region: SLH; pfam00395 373903005529 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 373903005530 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 373903005531 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 373903005532 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 373903005533 Protein of unknown function (DUF1633); Region: DUF1633; pfam07794 373903005534 Predicted permeases [General function prediction only]; Region: COG0795 373903005535 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 373903005536 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 373903005537 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 373903005538 Walker A/P-loop; other site 373903005539 ATP binding site [chemical binding]; other site 373903005540 Q-loop/lid; other site 373903005541 ABC transporter signature motif; other site 373903005542 Walker B; other site 373903005543 D-loop; other site 373903005544 H-loop/switch region; other site 373903005545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 373903005546 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 373903005547 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 373903005548 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 373903005549 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 373903005550 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 373903005551 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 373903005552 active site 373903005553 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 373903005554 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 373903005555 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 373903005556 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 373903005557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903005558 Walker A/P-loop; other site 373903005559 ATP binding site [chemical binding]; other site 373903005560 Q-loop/lid; other site 373903005561 ABC transporter signature motif; other site 373903005562 Walker B; other site 373903005563 D-loop; other site 373903005564 H-loop/switch region; other site 373903005565 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 373903005566 dimer interface [polypeptide binding]; other site 373903005567 ABC-ATPase subunit interface; other site 373903005568 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 373903005569 Predicted permeases [General function prediction only]; Region: COG0795 373903005570 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 373903005571 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 373903005572 Protein of unknown function, DUF481; Region: DUF481; cl01213 373903005573 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 373903005574 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 373903005575 active site 373903005576 catalytic triad [active] 373903005577 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 373903005578 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 373903005579 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 373903005580 trimer interface [polypeptide binding]; other site 373903005581 active site 373903005582 UDP-GlcNAc binding site [chemical binding]; other site 373903005583 lipid binding site [chemical binding]; lipid-binding site 373903005584 periplasmic chaperone; Provisional; Region: PRK10780 373903005585 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 373903005586 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 373903005587 periplasmic chaperone; Provisional; Region: PRK10780 373903005588 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 373903005589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 373903005590 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 373903005591 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 373903005592 Surface antigen; Region: Bac_surface_Ag; pfam01103 373903005593 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 373903005594 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 373903005595 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 373903005596 DNA binding residues [nucleotide binding] 373903005597 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 373903005598 Family of unknown function (DUF490); Region: DUF490; pfam04357 373903005599 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 373903005600 Family of unknown function (DUF490); Region: DUF490; pfam04357 373903005601 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 373903005602 rod shape-determining protein Mbl; Provisional; Region: PRK13928 373903005603 MreB and similar proteins; Region: MreB_like; cd10225 373903005604 nucleotide binding site [chemical binding]; other site 373903005605 Mg binding site [ion binding]; other site 373903005606 putative protofilament interaction site [polypeptide binding]; other site 373903005607 RodZ interaction site [polypeptide binding]; other site 373903005608 Stage III sporulation protein D; Region: SpoIIID; pfam12116 373903005609 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 373903005610 Peptidase family M23; Region: Peptidase_M23; pfam01551 373903005611 Stage II sporulation protein; Region: SpoIID; pfam08486 373903005612 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 373903005613 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 373903005614 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 373903005615 hinge; other site 373903005616 active site 373903005617 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 373903005618 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 373903005619 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 373903005620 gamma subunit interface [polypeptide binding]; other site 373903005621 epsilon subunit interface [polypeptide binding]; other site 373903005622 LBP interface [polypeptide binding]; other site 373903005623 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 373903005624 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 373903005625 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 373903005626 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 373903005627 alpha subunit interaction interface [polypeptide binding]; other site 373903005628 Walker A motif; other site 373903005629 ATP binding site [chemical binding]; other site 373903005630 Walker B motif; other site 373903005631 inhibitor binding site; inhibition site 373903005632 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 373903005633 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 373903005634 core domain interface [polypeptide binding]; other site 373903005635 delta subunit interface [polypeptide binding]; other site 373903005636 epsilon subunit interface [polypeptide binding]; other site 373903005637 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 373903005638 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 373903005639 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 373903005640 beta subunit interaction interface [polypeptide binding]; other site 373903005641 Walker A motif; other site 373903005642 ATP binding site [chemical binding]; other site 373903005643 Walker B motif; other site 373903005644 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 373903005645 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 373903005646 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 373903005647 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 373903005648 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 373903005649 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 373903005650 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 373903005651 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 373903005652 ATP synthase I chain; Region: ATP_synt_I; cl09170 373903005653 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 373903005654 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 373903005655 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 373903005656 active site 373903005657 homodimer interface [polypeptide binding]; other site 373903005658 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 373903005659 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 373903005660 Mg++ binding site [ion binding]; other site 373903005661 putative catalytic motif [active] 373903005662 substrate binding site [chemical binding]; other site 373903005663 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903005664 active site 373903005665 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 373903005666 Low molecular weight phosphatase family; Region: LMWPc; cd00115 373903005667 active site 373903005668 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 373903005669 Predicted membrane protein [Function unknown]; Region: COG1971 373903005670 Domain of unknown function DUF; Region: DUF204; pfam02659 373903005671 Domain of unknown function DUF; Region: DUF204; pfam02659 373903005672 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 373903005673 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 373903005674 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 373903005675 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 373903005676 S-adenosylmethionine binding site [chemical binding]; other site 373903005677 peptide chain release factor 1; Validated; Region: prfA; PRK00591 373903005678 This domain is found in peptide chain release factors; Region: PCRF; smart00937 373903005679 RF-1 domain; Region: RF-1; pfam00472 373903005680 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 373903005681 thymidine kinase; Provisional; Region: PRK04296 373903005682 AAA domain; Region: AAA_14; pfam13173 373903005683 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 373903005684 transcription termination factor Rho; Provisional; Region: rho; PRK09376 373903005685 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 373903005686 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 373903005687 RNA binding site [nucleotide binding]; other site 373903005688 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 373903005689 multimer interface [polypeptide binding]; other site 373903005690 Walker A motif; other site 373903005691 ATP binding site [chemical binding]; other site 373903005692 Walker B motif; other site 373903005693 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 373903005694 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 373903005695 intersubunit interface [polypeptide binding]; other site 373903005696 active site 373903005697 zinc binding site [ion binding]; other site 373903005698 Na+ binding site [ion binding]; other site 373903005699 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 373903005700 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 373903005701 motif II; other site 373903005702 CTP synthetase; Validated; Region: pyrG; PRK05380 373903005703 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 373903005704 Catalytic site [active] 373903005705 active site 373903005706 UTP binding site [chemical binding]; other site 373903005707 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 373903005708 active site 373903005709 putative oxyanion hole; other site 373903005710 catalytic triad [active] 373903005711 XapX domain; Region: XapX; TIGR03510 373903005712 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 373903005713 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 373903005714 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 373903005715 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 373903005716 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 373903005717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903005718 Walker A/P-loop; other site 373903005719 ATP binding site [chemical binding]; other site 373903005720 Q-loop/lid; other site 373903005721 ABC transporter signature motif; other site 373903005722 Walker B; other site 373903005723 D-loop; other site 373903005724 H-loop/switch region; other site 373903005725 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 373903005726 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 373903005727 catalytic residues [active] 373903005728 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 373903005729 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 373903005730 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 373903005731 catalytic residues [active] 373903005732 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 373903005733 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 373903005734 oligomer interface [polypeptide binding]; other site 373903005735 putative active site [active] 373903005736 metal binding site [ion binding]; metal-binding site 373903005737 Gamma subunit of transcription initiation factor IIA, N-terminal helical domain; Region: TFIIA_gamma_N; cl03508 373903005738 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 373903005739 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 373903005740 ligand binding site [chemical binding]; other site 373903005741 flexible hinge region; other site 373903005742 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 373903005743 putative switch regulator; other site 373903005744 non-specific DNA interactions [nucleotide binding]; other site 373903005745 DNA binding site [nucleotide binding] 373903005746 sequence specific DNA binding site [nucleotide binding]; other site 373903005747 putative cAMP binding site [chemical binding]; other site 373903005748 FecR protein; Region: FecR; pfam04773 373903005749 CHASE2 domain; Region: CHASE2; pfam05226 373903005750 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 373903005751 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 373903005752 cyclase homology domain; Region: CHD; cd07302 373903005753 nucleotidyl binding site; other site 373903005754 metal binding site [ion binding]; metal-binding site 373903005755 dimer interface [polypeptide binding]; other site 373903005756 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 373903005757 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 373903005758 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 373903005759 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 373903005760 catalytic residues [active] 373903005761 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 373903005762 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 373903005763 putative ADP-binding pocket [chemical binding]; other site 373903005764 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903005765 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 373903005766 substrate binding site [chemical binding]; other site 373903005767 ATP binding site [chemical binding]; other site 373903005768 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903005769 DNA binding site [nucleotide binding] 373903005770 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903005771 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903005772 DNA binding site [nucleotide binding] 373903005773 domain linker motif; other site 373903005774 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903005775 ligand binding site [chemical binding]; other site 373903005776 dimerization interface [polypeptide binding]; other site 373903005777 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 373903005778 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 373903005779 active site 373903005780 Na/Ca binding site [ion binding]; other site 373903005781 catalytic site [active] 373903005782 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 373903005783 glycogen binding site [chemical binding]; other site 373903005784 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 373903005785 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 373903005786 DNA binding residues [nucleotide binding] 373903005787 S-layer homology domain; Region: SLH; pfam00395 373903005788 hybrid cluster protein; Provisional; Region: PRK05290 373903005789 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 373903005790 ACS interaction site; other site 373903005791 CODH interaction site; other site 373903005792 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 373903005793 hybrid metal cluster; other site 373903005794 DNA damage checkpoint protein; Region: LCD1; pfam09798 373903005795 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 373903005796 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 373903005797 Walker A motif; other site 373903005798 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 373903005799 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 373903005800 ABC-ATPase subunit interface; other site 373903005801 dimer interface [polypeptide binding]; other site 373903005802 putative PBP binding regions; other site 373903005803 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 373903005804 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 373903005805 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 373903005806 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 373903005807 intersubunit interface [polypeptide binding]; other site 373903005808 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 373903005809 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 373903005810 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 373903005811 P loop nucleotide binding; other site 373903005812 switch II; other site 373903005813 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 373903005814 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 373903005815 P loop nucleotide binding; other site 373903005816 switch II; other site 373903005817 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 373903005818 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 373903005819 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 373903005820 Na2 binding site [ion binding]; other site 373903005821 putative substrate binding site 1 [chemical binding]; other site 373903005822 Na binding site 1 [ion binding]; other site 373903005823 putative substrate binding site 2 [chemical binding]; other site 373903005824 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 373903005825 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 373903005826 dimer interface [polypeptide binding]; other site 373903005827 conserved gate region; other site 373903005828 ABC-ATPase subunit interface; other site 373903005829 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 373903005830 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 373903005831 Walker A/P-loop; other site 373903005832 ATP binding site [chemical binding]; other site 373903005833 Q-loop/lid; other site 373903005834 ABC transporter signature motif; other site 373903005835 Walker B; other site 373903005836 D-loop; other site 373903005837 H-loop/switch region; other site 373903005838 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; cd02205 373903005839 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 373903005840 intersubunit interface [polypeptide binding]; other site 373903005841 active site 373903005842 Zn2+ binding site [ion binding]; other site 373903005843 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 373903005844 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 373903005845 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 373903005846 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 373903005847 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 373903005848 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903005849 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 373903005850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 373903005851 surface protein repeat Ser-Ala-175; Region: SerAla_Lrha_rpt; TIGR04319 373903005852 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 373903005853 RHS Repeat; Region: RHS_repeat; pfam05593 373903005854 RHS Repeat; Region: RHS_repeat; pfam05593 373903005855 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 373903005856 RHS Repeat; Region: RHS_repeat; pfam05593 373903005857 RHS Repeat; Region: RHS_repeat; pfam05593 373903005858 RHS Repeat; Region: RHS_repeat; pfam05593 373903005859 RHS Repeat; Region: RHS_repeat; pfam05593 373903005860 RHS Repeat; Region: RHS_repeat; pfam05593 373903005861 RHS Repeat; Region: RHS_repeat; pfam05593 373903005862 RHS Repeat; Region: RHS_repeat; pfam05593 373903005863 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 373903005864 RHS Repeat; Region: RHS_repeat; pfam05593 373903005865 RHS Repeat; Region: RHS_repeat; pfam05593 373903005866 RHS Repeat; Region: RHS_repeat; pfam05593 373903005867 RHS Repeat; Region: RHS_repeat; pfam05593 373903005868 RHS Repeat; Region: RHS_repeat; pfam05593 373903005869 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 373903005870 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903005871 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 373903005872 Secretin and TonB N terminus short domain; Region: STN; pfam07660 373903005873 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 373903005874 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 373903005875 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 373903005876 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 373903005877 type II secretion system protein I; Region: gspI; TIGR01707 373903005878 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 373903005879 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 373903005880 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 373903005881 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 373903005882 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 373903005883 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 373903005884 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 373903005885 type II secretion system protein E; Region: type_II_gspE; TIGR02533 373903005886 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 373903005887 Walker A motif; other site 373903005888 ATP binding site [chemical binding]; other site 373903005889 Walker B motif; other site 373903005890 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 373903005891 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 373903005892 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 373903005893 active site 373903005894 Ca binding site [ion binding]; other site 373903005895 catalytic site [active] 373903005896 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 373903005897 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 373903005898 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 373903005899 dimer interface [polypeptide binding]; other site 373903005900 conserved gate region; other site 373903005901 putative PBP binding loops; other site 373903005902 ABC-ATPase subunit interface; other site 373903005903 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 373903005904 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 373903005905 Walker A/P-loop; other site 373903005906 ATP binding site [chemical binding]; other site 373903005907 Q-loop/lid; other site 373903005908 ABC transporter signature motif; other site 373903005909 Walker B; other site 373903005910 D-loop; other site 373903005911 H-loop/switch region; other site 373903005912 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 373903005913 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 373903005914 dimer interface [polypeptide binding]; other site 373903005915 conserved gate region; other site 373903005916 putative PBP binding loops; other site 373903005917 ABC-ATPase subunit interface; other site 373903005918 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 373903005919 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 373903005920 substrate binding pocket [chemical binding]; other site 373903005921 membrane-bound complex binding site; other site 373903005922 hinge residues; other site 373903005923 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 373903005924 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 373903005925 active site 373903005926 HIGH motif; other site 373903005927 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 373903005928 active site 373903005929 KMSKS motif; other site 373903005930 FMN-binding domain; Region: FMN_bind; cl01081 373903005931 FMN-binding domain; Region: FMN_bind; cl01081 373903005932 Predicted membrane protein [Function unknown]; Region: COG2246 373903005933 GtrA-like protein; Region: GtrA; pfam04138 373903005934 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 373903005935 active site 373903005936 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 373903005937 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 373903005938 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 373903005939 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 373903005940 active site 373903005941 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 373903005942 O-Antigen ligase; Region: Wzy_C; pfam04932 373903005943 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 373903005944 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 373903005945 putative metal binding site; other site 373903005946 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 373903005947 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 373903005948 putative active site [active] 373903005949 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 373903005950 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 373903005951 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 373903005952 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 373903005953 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 373903005954 putative active site [active] 373903005955 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 373903005956 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 373903005957 putative acyl-acceptor binding pocket; other site 373903005958 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 373903005959 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 373903005960 putative active site [active] 373903005961 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 373903005962 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 373903005963 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 373903005964 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 373903005965 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 373903005966 Ligand binding site; other site 373903005967 oligomer interface; other site 373903005968 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 373903005969 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 373903005970 putative acyl-acceptor binding pocket; other site 373903005971 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 373903005972 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 373903005973 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 373903005974 Walker A/P-loop; other site 373903005975 ATP binding site [chemical binding]; other site 373903005976 Q-loop/lid; other site 373903005977 ABC transporter signature motif; other site 373903005978 Walker B; other site 373903005979 D-loop; other site 373903005980 H-loop/switch region; other site 373903005981 HutP; Region: HutP; pfam09021 373903005982 hexamer interface [polypeptide binding]; other site 373903005983 RNA binding site [nucleotide binding]; other site 373903005984 Histidine-zinc binding site [chemical binding]; other site 373903005985 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 373903005986 homodimer interface [polypeptide binding]; other site 373903005987 Walker A motif; other site 373903005988 ATP binding site [chemical binding]; other site 373903005989 hydroxycobalamin binding site [chemical binding]; other site 373903005990 Walker B motif; other site 373903005991 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 373903005992 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 373903005993 cobalamin binding residues [chemical binding]; other site 373903005994 putative BtuC binding residues; other site 373903005995 dimer interface [polypeptide binding]; other site 373903005996 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 373903005997 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 373903005998 Protein of unknown function DUF58; Region: DUF58; pfam01882 373903005999 MoxR-like ATPases [General function prediction only]; Region: COG0714 373903006000 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 373903006001 Walker A motif; other site 373903006002 ATP binding site [chemical binding]; other site 373903006003 Walker B motif; other site 373903006004 arginine finger; other site 373903006005 NAD synthetase; Provisional; Region: PRK13980 373903006006 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 373903006007 homodimer interface [polypeptide binding]; other site 373903006008 NAD binding pocket [chemical binding]; other site 373903006009 ATP binding pocket [chemical binding]; other site 373903006010 Mg binding site [ion binding]; other site 373903006011 active-site loop [active] 373903006012 Protein kinase domain; Region: Pkinase; pfam00069 373903006013 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 373903006014 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 373903006015 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 373903006016 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 373903006017 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 373903006018 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 373903006019 active site 373903006020 dimer interface [polypeptide binding]; other site 373903006021 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 373903006022 dimer interface [polypeptide binding]; other site 373903006023 active site 373903006024 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 373903006025 Rubrerythrin [Energy production and conversion]; Region: COG1592 373903006026 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 373903006027 binuclear metal center [ion binding]; other site 373903006028 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 373903006029 iron binding site [ion binding]; other site 373903006030 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 373903006031 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 373903006032 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 373903006033 trimer interface [polypeptide binding]; other site 373903006034 active site 373903006035 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 373903006036 catalytic site [active] 373903006037 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 373903006038 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 373903006039 AsnC family; Region: AsnC_trans_reg; pfam01037 373903006040 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 373903006041 Late competence development protein ComFB; Region: ComFB; pfam10719 373903006042 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 373903006043 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 373903006044 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 373903006045 active site 373903006046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 373903006047 dimer interface [polypeptide binding]; other site 373903006048 substrate binding site [chemical binding]; other site 373903006049 catalytic residue [active] 373903006050 biotin synthase; Provisional; Region: PRK07094 373903006051 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 373903006052 FeS/SAM binding site; other site 373903006053 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 373903006054 Predicted acetyltransferase [General function prediction only]; Region: COG3393 373903006055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 373903006056 pyrophosphatase PpaX; Provisional; Region: PRK13288 373903006057 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 373903006058 motif II; other site 373903006059 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903006060 DNA binding site [nucleotide binding] 373903006061 domain linker motif; other site 373903006062 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 373903006063 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 373903006064 ligand binding site [chemical binding]; other site 373903006065 RibD C-terminal domain; Region: RibD_C; cl17279 373903006066 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 373903006067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 373903006068 classical (c) SDRs; Region: SDR_c; cd05233 373903006069 NAD(P) binding site [chemical binding]; other site 373903006070 active site 373903006071 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 373903006072 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cl00249 373903006073 trimer interface I [polypeptide binding]; other site 373903006074 putative substrate binding pocket [chemical binding]; other site 373903006075 trimer interface II [polypeptide binding]; other site 373903006076 putative hydrolase; Validated; Region: PRK09248 373903006077 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 373903006078 active site 373903006079 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 373903006080 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 373903006081 putative dimer interface [polypeptide binding]; other site 373903006082 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 373903006083 H+ Antiporter protein; Region: 2A0121; TIGR00900 373903006084 putative substrate translocation pore; other site 373903006085 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 373903006086 active site 373903006087 catalytic residues [active] 373903006088 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 373903006089 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 373903006090 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 373903006091 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 373903006092 Walker A/P-loop; other site 373903006093 ATP binding site [chemical binding]; other site 373903006094 Q-loop/lid; other site 373903006095 ABC transporter signature motif; other site 373903006096 Walker B; other site 373903006097 D-loop; other site 373903006098 H-loop/switch region; other site 373903006099 potential frameshift: common BLAST hit: gi|158320973|ref|YP_001513480.1| ABC transporter related 373903006100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903006101 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 373903006102 Walker A/P-loop; other site 373903006103 ATP binding site [chemical binding]; other site 373903006104 Q-loop/lid; other site 373903006105 ABC transporter signature motif; other site 373903006106 Walker B; other site 373903006107 D-loop; other site 373903006108 H-loop/switch region; other site 373903006109 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 373903006110 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 373903006111 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 373903006112 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 373903006113 G1 box; other site 373903006114 GTP/Mg2+ binding site [chemical binding]; other site 373903006115 Switch I region; other site 373903006116 G2 box; other site 373903006117 Switch II region; other site 373903006118 G3 box; other site 373903006119 G4 box; other site 373903006120 G5 box; other site 373903006121 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 373903006122 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 373903006123 FeS/SAM binding site; other site 373903006124 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 373903006125 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 373903006126 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 373903006127 PhoU domain; Region: PhoU; pfam01895 373903006128 PhoU domain; Region: PhoU; pfam01895 373903006129 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 373903006130 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 373903006131 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 373903006132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903006133 putative homodimer interface [polypeptide binding]; other site 373903006134 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 373903006135 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 373903006136 V-type ATP synthase subunit B; Provisional; Region: PRK04196 373903006137 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 373903006138 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 373903006139 Walker A motif homologous position; other site 373903006140 Walker B motif; other site 373903006141 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 373903006142 V-type ATP synthase subunit A; Provisional; Region: PRK04192 373903006143 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 373903006144 Walker A motif/ATP binding site; other site 373903006145 Walker B motif; other site 373903006146 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 373903006147 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 373903006148 ATP synthase (E/31 kDa) subunit; Region: vATP-synt_E; pfam01991 373903006149 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 373903006150 ATP synthase subunit C; Region: ATP-synt_C; cl00466 373903006151 V-type ATP synthase subunit I; Validated; Region: PRK05771 373903006152 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 373903006153 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 373903006154 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903006155 HAMP domain; Region: HAMP; pfam00672 373903006156 dimerization interface [polypeptide binding]; other site 373903006157 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006158 dimer interface [polypeptide binding]; other site 373903006159 putative CheW interface [polypeptide binding]; other site 373903006160 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 373903006161 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 373903006162 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903006163 TM-ABC transporter signature motif; other site 373903006164 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 373903006165 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 373903006166 Walker A/P-loop; other site 373903006167 ATP binding site [chemical binding]; other site 373903006168 Q-loop/lid; other site 373903006169 ABC transporter signature motif; other site 373903006170 Walker B; other site 373903006171 D-loop; other site 373903006172 H-loop/switch region; other site 373903006173 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 373903006174 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 373903006175 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 373903006176 putative ligand binding site [chemical binding]; other site 373903006177 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 373903006178 N- and C-terminal domain interface [polypeptide binding]; other site 373903006179 D-xylulose kinase; Region: XylB; TIGR01312 373903006180 active site 373903006181 MgATP binding site [chemical binding]; other site 373903006182 catalytic site [active] 373903006183 metal binding site [ion binding]; metal-binding site 373903006184 xylulose binding site [chemical binding]; other site 373903006185 homodimer interface [polypeptide binding]; other site 373903006186 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 373903006187 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 373903006188 xylose isomerase; Provisional; Region: PRK05474 373903006189 xylose isomerase; Region: xylose_isom_A; TIGR02630 373903006190 Transcriptional regulators [Transcription]; Region: MarR; COG1846 373903006191 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 373903006192 dimerization interface [polypeptide binding]; other site 373903006193 putative Zn2+ binding site [ion binding]; other site 373903006194 putative DNA binding site [nucleotide binding]; other site 373903006195 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 373903006196 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903006197 nucleotide binding site [chemical binding]; other site 373903006198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 373903006199 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 373903006200 carbohydrate binding site [chemical binding]; other site 373903006201 pullulanase, type I; Region: pulA_typeI; TIGR02104 373903006202 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 373903006203 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 373903006204 Ca binding site [ion binding]; other site 373903006205 active site 373903006206 catalytic site [active] 373903006207 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 373903006208 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 373903006209 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 373903006210 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 373903006211 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 373903006212 homodimer interface [polypeptide binding]; other site 373903006213 substrate-cofactor binding pocket; other site 373903006214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903006215 catalytic residue [active] 373903006216 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 373903006217 FAD binding site [chemical binding]; other site 373903006218 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 373903006219 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 373903006220 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 373903006221 substrate binding pocket [chemical binding]; other site 373903006222 dimer interface [polypeptide binding]; other site 373903006223 inhibitor binding site; inhibition site 373903006224 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 373903006225 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 373903006226 B12 binding site [chemical binding]; other site 373903006227 cobalt ligand [ion binding]; other site 373903006228 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 373903006229 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 373903006230 Surface antigen; Region: Bac_surface_Ag; pfam01103 373903006231 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 373903006232 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903006233 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 373903006234 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 373903006235 Walker A/P-loop; other site 373903006236 ATP binding site [chemical binding]; other site 373903006237 Q-loop/lid; other site 373903006238 ABC transporter signature motif; other site 373903006239 Walker B; other site 373903006240 D-loop; other site 373903006241 H-loop/switch region; other site 373903006242 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903006243 binding surface 373903006244 TPR motif; other site 373903006245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 373903006246 Histidine kinase; Region: HisKA_3; pfam07730 373903006247 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 373903006248 ATP binding site [chemical binding]; other site 373903006249 Mg2+ binding site [ion binding]; other site 373903006250 G-X-G motif; other site 373903006251 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 373903006252 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 373903006253 active site 373903006254 phosphorylation site [posttranslational modification] 373903006255 intermolecular recognition site; other site 373903006256 dimerization interface [polypeptide binding]; other site 373903006257 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 373903006258 DNA binding residues [nucleotide binding] 373903006259 dimerization interface [polypeptide binding]; other site 373903006260 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 373903006261 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 373903006262 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 373903006263 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 373903006264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903006265 Walker A/P-loop; other site 373903006266 ATP binding site [chemical binding]; other site 373903006267 Q-loop/lid; other site 373903006268 ABC transporter signature motif; other site 373903006269 Walker B; other site 373903006270 D-loop; other site 373903006271 H-loop/switch region; other site 373903006272 Cache domain; Region: Cache_1; pfam02743 373903006273 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 373903006274 dimerization interface [polypeptide binding]; other site 373903006275 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903006276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006277 dimer interface [polypeptide binding]; other site 373903006278 putative CheW interface [polypeptide binding]; other site 373903006279 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 373903006280 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 373903006281 catalytic domain interface [polypeptide binding]; other site 373903006282 homodimer interface [polypeptide binding]; other site 373903006283 putative active site [active] 373903006284 N-terminal domain of chitobiose phosphorylase (ChBP) and similar proteins; Region: GH94N_ChBP_like; cd11755 373903006285 catalytic domain interface [polypeptide binding]; other site 373903006286 putative homodimer interface [polypeptide binding]; other site 373903006287 Protein of unknown function, DUF608; Region: DUF608; pfam04685 373903006288 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903006289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903006290 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006291 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 373903006292 dimer interface [polypeptide binding]; other site 373903006293 conserved gate region; other site 373903006294 putative PBP binding loops; other site 373903006295 ABC-ATPase subunit interface; other site 373903006296 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 373903006297 dimer interface [polypeptide binding]; other site 373903006298 conserved gate region; other site 373903006299 ABC-ATPase subunit interface; other site 373903006300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903006301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903006302 DNA binding site [nucleotide binding] 373903006303 domain linker motif; other site 373903006304 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903006305 ligand binding site [chemical binding]; other site 373903006306 dimerization interface [polypeptide binding]; other site 373903006307 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 373903006308 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 373903006309 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 373903006310 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 373903006311 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006312 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006313 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 373903006314 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006315 Leucine-rich repeats; other site 373903006316 Substrate binding site [chemical binding]; other site 373903006317 Leucine rich repeat; Region: LRR_8; pfam13855 373903006318 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006319 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006320 Leucine rich repeat; Region: LRR_8; pfam13855 373903006321 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006322 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006323 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006324 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006325 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006326 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006327 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 373903006328 Cache domain; Region: Cache_1; pfam02743 373903006329 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903006330 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 373903006331 dimerization interface [polypeptide binding]; other site 373903006332 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 373903006333 Histidine kinase; Region: His_kinase; pfam06580 373903006334 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 373903006335 ATP binding site [chemical binding]; other site 373903006336 Mg2+ binding site [ion binding]; other site 373903006337 G-X-G motif; other site 373903006338 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 373903006339 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 373903006340 ligand binding site [chemical binding]; other site 373903006341 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006342 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 373903006343 dimer interface [polypeptide binding]; other site 373903006344 conserved gate region; other site 373903006345 putative PBP binding loops; other site 373903006346 ABC-ATPase subunit interface; other site 373903006347 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 373903006348 dimer interface [polypeptide binding]; other site 373903006349 conserved gate region; other site 373903006350 putative PBP binding loops; other site 373903006351 ABC-ATPase subunit interface; other site 373903006352 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903006353 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 373903006354 dimerization interface [polypeptide binding]; other site 373903006355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006356 dimer interface [polypeptide binding]; other site 373903006357 putative CheW interface [polypeptide binding]; other site 373903006358 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903006359 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903006360 Response regulator receiver domain; Region: Response_reg; pfam00072 373903006361 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 373903006362 active site 373903006363 phosphorylation site [posttranslational modification] 373903006364 intermolecular recognition site; other site 373903006365 dimerization interface [polypeptide binding]; other site 373903006366 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 373903006367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903006368 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 373903006369 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 373903006370 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 373903006371 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 373903006372 tetramer interface [polypeptide binding]; other site 373903006373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903006374 catalytic residue [active] 373903006375 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 373903006376 NTPase; Region: NTPase_1; cl17478 373903006377 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903006378 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 373903006379 putative substrate binding site [chemical binding]; other site 373903006380 putative ATP binding site [chemical binding]; other site 373903006381 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 373903006382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 373903006383 Walker A/P-loop; other site 373903006384 ATP binding site [chemical binding]; other site 373903006385 Q-loop/lid; other site 373903006386 ABC transporter signature motif; other site 373903006387 Walker B; other site 373903006388 D-loop; other site 373903006389 H-loop/switch region; other site 373903006390 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903006391 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 373903006392 TM-ABC transporter signature motif; other site 373903006393 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 373903006394 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 373903006395 zinc binding site [ion binding]; other site 373903006396 putative ligand binding site [chemical binding]; other site 373903006397 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 373903006398 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 373903006399 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 373903006400 catalytic residue [active] 373903006401 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 373903006402 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 373903006403 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 373903006404 active site 373903006405 Flagellin N-methylase; Region: FliB; pfam03692 373903006406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903006407 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903006408 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 373903006409 Predicted permease; Region: DUF318; cl17795 373903006410 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 373903006411 dimerization interface [polypeptide binding]; other site 373903006412 putative DNA binding site [nucleotide binding]; other site 373903006413 putative Zn2+ binding site [ion binding]; other site 373903006414 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 373903006415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 373903006416 putative substrate translocation pore; other site 373903006417 4Fe-4S binding domain; Region: Fer4; cl02805 373903006418 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 373903006419 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 373903006420 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 373903006421 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 373903006422 dimerization domain swap beta strand [polypeptide binding]; other site 373903006423 regulatory protein interface [polypeptide binding]; other site 373903006424 active site 373903006425 regulatory phosphorylation site [posttranslational modification]; other site 373903006426 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 373903006427 HTH domain; Region: HTH_11; pfam08279 373903006428 Mga helix-turn-helix domain; Region: Mga; pfam05043 373903006429 PRD domain; Region: PRD; pfam00874 373903006430 PRD domain; Region: PRD; pfam00874 373903006431 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 373903006432 active site 373903006433 P-loop; other site 373903006434 phosphorylation site [posttranslational modification] 373903006435 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 373903006436 active site 373903006437 phosphorylation site [posttranslational modification] 373903006438 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 373903006439 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 373903006440 non-specific DNA binding site [nucleotide binding]; other site 373903006441 salt bridge; other site 373903006442 sequence-specific DNA binding site [nucleotide binding]; other site 373903006443 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 373903006444 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 373903006445 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 373903006446 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 373903006447 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 373903006448 HsdM N-terminal domain; Region: HsdM_N; pfam12161 373903006449 Methyltransferase domain; Region: Methyltransf_26; pfam13659 373903006450 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 373903006451 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 373903006452 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 373903006453 ATP binding site [chemical binding]; other site 373903006454 putative Mg++ binding site [ion binding]; other site 373903006455 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 373903006456 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 373903006457 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 373903006458 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 373903006459 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 373903006460 active site 373903006461 phosphorylation site [posttranslational modification] 373903006462 intermolecular recognition site; other site 373903006463 dimerization interface [polypeptide binding]; other site 373903006464 CheB methylesterase; Region: CheB_methylest; pfam01339 373903006465 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 373903006466 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 373903006467 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 373903006468 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 373903006469 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 373903006470 CoA binding domain; Region: CoA_binding; pfam02629 373903006471 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 373903006472 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 373903006473 active site 373903006474 HIGH motif; other site 373903006475 KMSKS motif; other site 373903006476 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 373903006477 tRNA binding surface [nucleotide binding]; other site 373903006478 anticodon binding site; other site 373903006479 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 373903006480 dimer interface [polypeptide binding]; other site 373903006481 putative tRNA-binding site [nucleotide binding]; other site 373903006482 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 373903006483 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 373903006484 dimer interface [polypeptide binding]; other site 373903006485 active site 373903006486 metal binding site [ion binding]; metal-binding site 373903006487 Predicted methyltransferases [General function prediction only]; Region: COG0313 373903006488 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 373903006489 putative SAM binding site [chemical binding]; other site 373903006490 putative homodimer interface [polypeptide binding]; other site 373903006491 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 373903006492 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 373903006493 S-adenosylmethionine binding site [chemical binding]; other site 373903006494 Protein of unknown function (DUF972); Region: DUF972; pfam06156 373903006495 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 373903006496 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 373903006497 DNA polymerase III subunit delta'; Validated; Region: PRK08485 373903006498 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 373903006499 Protein of unknown function (DUF970); Region: DUF970; cl17525 373903006500 thymidylate kinase; Validated; Region: tmk; PRK00698 373903006501 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 373903006502 TMP-binding site; other site 373903006503 ATP-binding site [chemical binding]; other site 373903006504 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 373903006505 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 373903006506 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 373903006507 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 373903006508 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 373903006509 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 373903006510 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 373903006511 conserved repeat domain; Region: B_ant_repeat; TIGR01451 373903006512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006513 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 373903006514 dimer interface [polypeptide binding]; other site 373903006515 conserved gate region; other site 373903006516 putative PBP binding loops; other site 373903006517 ABC-ATPase subunit interface; other site 373903006518 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 373903006519 dimer interface [polypeptide binding]; other site 373903006520 conserved gate region; other site 373903006521 putative PBP binding loops; other site 373903006522 ABC-ATPase subunit interface; other site 373903006523 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 373903006524 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903006525 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 373903006526 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 373903006527 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 373903006528 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 373903006529 active site 373903006530 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 373903006531 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 373903006532 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 373903006533 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 373903006534 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006535 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 373903006536 dimer interface [polypeptide binding]; other site 373903006537 conserved gate region; other site 373903006538 putative PBP binding loops; other site 373903006539 ABC-ATPase subunit interface; other site 373903006540 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 373903006541 dimer interface [polypeptide binding]; other site 373903006542 conserved gate region; other site 373903006543 putative PBP binding loops; other site 373903006544 ABC-ATPase subunit interface; other site 373903006545 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903006546 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903006547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 373903006548 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903006549 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903006550 DNA binding site [nucleotide binding] 373903006551 domain linker motif; other site 373903006552 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903006553 ligand binding site [chemical binding]; other site 373903006554 dimerization interface [polypeptide binding]; other site 373903006555 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 373903006556 AAA ATPase domain; Region: AAA_16; pfam13191 373903006557 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903006558 binding surface 373903006559 TPR motif; other site 373903006560 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 373903006561 DNA binding residues [nucleotide binding] 373903006562 dimerization interface [polypeptide binding]; other site 373903006563 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 373903006564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 373903006565 Coenzyme A binding pocket [chemical binding]; other site 373903006566 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 373903006567 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 373903006568 active site 373903006569 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 373903006570 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 373903006571 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 373903006572 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 373903006573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006574 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 373903006575 dimer interface [polypeptide binding]; other site 373903006576 conserved gate region; other site 373903006577 putative PBP binding loops; other site 373903006578 ABC-ATPase subunit interface; other site 373903006579 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 373903006580 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 373903006581 dimer interface [polypeptide binding]; other site 373903006582 conserved gate region; other site 373903006583 putative PBP binding loops; other site 373903006584 ABC-ATPase subunit interface; other site 373903006585 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 373903006586 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903006587 Predicted transcriptional regulator [Transcription]; Region: COG4189 373903006588 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 373903006589 putative DNA binding site [nucleotide binding]; other site 373903006590 dimerization interface [polypeptide binding]; other site 373903006591 putative Zn2+ binding site [ion binding]; other site 373903006592 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 373903006593 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 373903006594 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 373903006595 active site 373903006596 galactokinase; Provisional; Region: PRK05322 373903006597 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 373903006598 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 373903006599 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 373903006600 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 373903006601 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 373903006602 dimer interface [polypeptide binding]; other site 373903006603 active site 373903006604 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 373903006605 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 373903006606 NAD binding site [chemical binding]; other site 373903006607 homodimer interface [polypeptide binding]; other site 373903006608 active site 373903006609 substrate binding site [chemical binding]; other site 373903006610 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 373903006611 putative DNA binding site [nucleotide binding]; other site 373903006612 putative Zn2+ binding site [ion binding]; other site 373903006613 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 373903006614 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903006615 nucleotide binding site [chemical binding]; other site 373903006616 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 373903006617 4Fe-4S binding domain; Region: Fer4; pfam00037 373903006618 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 373903006619 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 373903006620 TPP-binding site [chemical binding]; other site 373903006621 putative dimer interface [polypeptide binding]; other site 373903006622 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 373903006623 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 373903006624 dimer interface [polypeptide binding]; other site 373903006625 PYR/PP interface [polypeptide binding]; other site 373903006626 TPP binding site [chemical binding]; other site 373903006627 substrate binding site [chemical binding]; other site 373903006628 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 373903006629 4Fe-4S binding domain; Region: Fer4; cl02805 373903006630 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 373903006631 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 373903006632 Protein of unknown function, DUF606; Region: DUF606; pfam04657 373903006633 recombination protein RecR; Reviewed; Region: recR; PRK00076 373903006634 RecR protein; Region: RecR; pfam02132 373903006635 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 373903006636 putative active site [active] 373903006637 putative metal-binding site [ion binding]; other site 373903006638 tetramer interface [polypeptide binding]; other site 373903006639 hypothetical protein; Validated; Region: PRK00153 373903006640 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 373903006641 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 373903006642 Walker A motif; other site 373903006643 ATP binding site [chemical binding]; other site 373903006644 Walker B motif; other site 373903006645 arginine finger; other site 373903006646 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 373903006647 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 373903006648 nucleoside/Zn binding site; other site 373903006649 dimer interface [polypeptide binding]; other site 373903006650 catalytic motif [active] 373903006651 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 373903006652 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 373903006653 dimer interface [polypeptide binding]; other site 373903006654 PYR/PP interface [polypeptide binding]; other site 373903006655 TPP binding site [chemical binding]; other site 373903006656 substrate binding site [chemical binding]; other site 373903006657 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 373903006658 Domain of unknown function; Region: EKR; smart00890 373903006659 4Fe-4S binding domain; Region: Fer4_6; pfam12837 373903006660 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 373903006661 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 373903006662 TPP-binding site [chemical binding]; other site 373903006663 dimer interface [polypeptide binding]; other site 373903006664 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 373903006665 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 373903006666 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 373903006667 Cache domain; Region: Cache_1; pfam02743 373903006668 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 373903006669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903006670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006671 dimer interface [polypeptide binding]; other site 373903006672 putative CheW interface [polypeptide binding]; other site 373903006673 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903006674 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 373903006675 dimer interface [polypeptide binding]; other site 373903006676 conserved gate region; other site 373903006677 putative PBP binding loops; other site 373903006678 ABC-ATPase subunit interface; other site 373903006679 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 373903006680 dimer interface [polypeptide binding]; other site 373903006681 conserved gate region; other site 373903006682 putative PBP binding loops; other site 373903006683 ABC-ATPase subunit interface; other site 373903006684 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903006685 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903006686 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903006687 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903006688 DNA binding site [nucleotide binding] 373903006689 domain linker motif; other site 373903006690 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903006691 dimerization interface [polypeptide binding]; other site 373903006692 ligand binding site [chemical binding]; other site 373903006693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 373903006694 YheO-like PAS domain; Region: PAS_6; pfam08348 373903006695 HTH domain; Region: HTH_22; pfam13309 373903006696 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 373903006697 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 373903006698 substrate binding site [chemical binding]; other site 373903006699 tetramer interface [polypeptide binding]; other site 373903006700 catalytic residue [active] 373903006701 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 373903006702 Na2 binding site [ion binding]; other site 373903006703 putative substrate binding site 1 [chemical binding]; other site 373903006704 Na binding site 1 [ion binding]; other site 373903006705 putative substrate binding site 2 [chemical binding]; other site 373903006706 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 373903006707 homotrimer interaction site [polypeptide binding]; other site 373903006708 putative active site [active] 373903006709 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 373903006710 Heavy-metal-associated domain; Region: HMA; pfam00403 373903006711 metal-binding site [ion binding] 373903006712 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 373903006713 Soluble P-type ATPase [General function prediction only]; Region: COG4087 373903006714 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 373903006715 Ligand Binding Site [chemical binding]; other site 373903006716 Predicted transcriptional regulator [Transcription]; Region: COG2932 373903006717 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 373903006718 non-specific DNA binding site [nucleotide binding]; other site 373903006719 salt bridge; other site 373903006720 sequence-specific DNA binding site [nucleotide binding]; other site 373903006721 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 373903006722 Catalytic site [active] 373903006723 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 373903006724 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 373903006725 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 373903006726 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 373903006727 Cache domain; Region: Cache_1; pfam02743 373903006728 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 373903006729 dimerization interface [polypeptide binding]; other site 373903006730 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903006731 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006732 dimer interface [polypeptide binding]; other site 373903006733 putative CheW interface [polypeptide binding]; other site 373903006734 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 373903006735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 373903006736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 373903006737 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 373903006738 Protein of unknown function DUF89; Region: DUF89; cl15397 373903006739 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 373903006740 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 373903006741 E3 interaction surface; other site 373903006742 lipoyl attachment site [posttranslational modification]; other site 373903006743 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 373903006744 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 373903006745 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 373903006746 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 373903006747 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 373903006748 putative hydratase; Provisional; Region: PRK11413 373903006749 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 373903006750 substrate binding site [chemical binding]; other site 373903006751 ligand binding site [chemical binding]; other site 373903006752 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 373903006753 substrate binding site [chemical binding]; other site 373903006754 seryl-tRNA synthetase; Provisional; Region: PRK05431 373903006755 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 373903006756 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 373903006757 dimer interface [polypeptide binding]; other site 373903006758 active site 373903006759 motif 1; other site 373903006760 motif 2; other site 373903006761 motif 3; other site 373903006762 T-box leader 373903006763 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 373903006764 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 373903006765 B12 binding site [chemical binding]; other site 373903006766 cobalt ligand [ion binding]; other site 373903006767 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 373903006768 MutL protein; Region: MutL; pfam13941 373903006769 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 373903006770 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 373903006771 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 373903006772 catalytic residue [active] 373903006773 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 373903006774 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 373903006775 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 373903006776 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 373903006777 hexamer interface [polypeptide binding]; other site 373903006778 ligand binding site [chemical binding]; other site 373903006779 putative active site [active] 373903006780 NAD(P) binding site [chemical binding]; other site 373903006781 SurA N-terminal domain; Region: SurA_N_3; cl07813 373903006782 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 373903006783 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 373903006784 Stage II sporulation protein; Region: SpoIID; pfam08486 373903006785 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 373903006786 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 373903006787 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 373903006788 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 373903006789 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 373903006790 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 373903006791 homodimer interface [polypeptide binding]; other site 373903006792 metal binding site [ion binding]; metal-binding site 373903006793 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 373903006794 homodimer interface [polypeptide binding]; other site 373903006795 active site 373903006796 putative chemical substrate binding site [chemical binding]; other site 373903006797 metal binding site [ion binding]; metal-binding site 373903006798 stage V sporulation protein B; Region: spore_V_B; TIGR02900 373903006799 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 373903006800 stage V sporulation protein T; Region: spore_V_T; TIGR02851 373903006801 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 373903006802 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 373903006803 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 373903006804 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 373903006805 ATP binding site [chemical binding]; other site 373903006806 putative Mg++ binding site [ion binding]; other site 373903006807 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 373903006808 nucleotide binding region [chemical binding]; other site 373903006809 ATP-binding site [chemical binding]; other site 373903006810 TRCF domain; Region: TRCF; pfam03461 373903006811 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 373903006812 putative active site [active] 373903006813 catalytic residue [active] 373903006814 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 373903006815 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 373903006816 5S rRNA interface [nucleotide binding]; other site 373903006817 CTC domain interface [polypeptide binding]; other site 373903006818 L16 interface [polypeptide binding]; other site 373903006819 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 373903006820 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 373903006821 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903006822 active site 373903006823 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 373903006824 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 373903006825 Substrate binding site; other site 373903006826 Mg++ binding site; other site 373903006827 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 373903006828 active site 373903006829 substrate binding site [chemical binding]; other site 373903006830 CoA binding site [chemical binding]; other site 373903006831 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 373903006832 active site 373903006833 substrate binding site [chemical binding]; other site 373903006834 SpoVG; Region: SpoVG; pfam04026 373903006835 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 373903006836 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 373903006837 dimerization interface [polypeptide binding]; other site 373903006838 putative ATP binding site [chemical binding]; other site 373903006839 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 373903006840 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 373903006841 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 373903006842 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 373903006843 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 373903006844 DNA binding residues [nucleotide binding] 373903006845 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 373903006846 putative dimer interface [polypeptide binding]; other site 373903006847 hypothetical protein; Provisional; Region: PRK06851 373903006848 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 373903006849 Walker A motif; other site 373903006850 ATP binding site [chemical binding]; other site 373903006851 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 373903006852 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 373903006853 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 373903006854 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 373903006855 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 373903006856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 373903006857 metal binding site [ion binding]; metal-binding site 373903006858 active site 373903006859 I-site; other site 373903006860 pur operon repressor; Provisional; Region: PRK09213 373903006861 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 373903006862 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903006863 active site 373903006864 active site 373903006865 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 373903006866 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 373903006867 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 373903006868 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 373903006869 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 373903006870 putative catalytic site [active] 373903006871 putative metal binding site [ion binding]; other site 373903006872 putative phosphate binding site [ion binding]; other site 373903006873 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 373903006874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 373903006875 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903006876 calcium/proton exchanger (cax); Region: cax; TIGR00378 373903006877 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 373903006878 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 373903006879 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006880 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006881 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006882 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903006883 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006884 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006885 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006886 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903006887 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903006888 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006889 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006890 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 373903006891 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 373903006892 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 373903006893 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 373903006894 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 373903006895 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 373903006896 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 373903006897 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 373903006898 dimer interface [polypeptide binding]; other site 373903006899 conserved gate region; other site 373903006900 putative PBP binding loops; other site 373903006901 ABC-ATPase subunit interface; other site 373903006902 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 373903006903 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 373903006904 Walker A/P-loop; other site 373903006905 ATP binding site [chemical binding]; other site 373903006906 Q-loop/lid; other site 373903006907 ABC transporter signature motif; other site 373903006908 Walker B; other site 373903006909 D-loop; other site 373903006910 H-loop/switch region; other site 373903006911 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 373903006912 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 373903006913 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 373903006914 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 373903006915 Walker A/P-loop; other site 373903006916 ATP binding site [chemical binding]; other site 373903006917 Q-loop/lid; other site 373903006918 ABC transporter signature motif; other site 373903006919 Walker B; other site 373903006920 D-loop; other site 373903006921 H-loop/switch region; other site 373903006922 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 373903006923 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 373903006924 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 373903006925 PhoU domain; Region: PhoU; pfam01895 373903006926 PhoU domain; Region: PhoU; pfam01895 373903006927 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 373903006928 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 373903006929 Walker A/P-loop; other site 373903006930 ATP binding site [chemical binding]; other site 373903006931 Q-loop/lid; other site 373903006932 ABC transporter signature motif; other site 373903006933 Walker B; other site 373903006934 D-loop; other site 373903006935 H-loop/switch region; other site 373903006936 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 373903006937 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 373903006938 dimer interface [polypeptide binding]; other site 373903006939 conserved gate region; other site 373903006940 putative PBP binding loops; other site 373903006941 ABC-ATPase subunit interface; other site 373903006942 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 373903006943 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 373903006944 dimer interface [polypeptide binding]; other site 373903006945 conserved gate region; other site 373903006946 putative PBP binding loops; other site 373903006947 ABC-ATPase subunit interface; other site 373903006948 PBP superfamily domain; Region: PBP_like_2; cl17296 373903006949 Cache domain; Region: Cache_1; pfam02743 373903006950 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903006951 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 373903006952 dimerization interface [polypeptide binding]; other site 373903006953 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903006954 dimer interface [polypeptide binding]; other site 373903006955 putative CheW interface [polypeptide binding]; other site 373903006956 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 373903006957 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 373903006958 dimer interface [polypeptide binding]; other site 373903006959 conserved gate region; other site 373903006960 putative PBP binding loops; other site 373903006961 ABC-ATPase subunit interface; other site 373903006962 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 373903006963 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 373903006964 dimer interface [polypeptide binding]; other site 373903006965 conserved gate region; other site 373903006966 putative PBP binding loops; other site 373903006967 ABC-ATPase subunit interface; other site 373903006968 PBP superfamily domain; Region: PBP_like_2; cl17296 373903006969 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 373903006970 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 373903006971 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 373903006972 dimerization interface [polypeptide binding]; other site 373903006973 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 373903006974 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 373903006975 putative active site [active] 373903006976 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 373903006977 dimer interface [polypeptide binding]; other site 373903006978 phosphorylation site [posttranslational modification] 373903006979 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 373903006980 ATP binding site [chemical binding]; other site 373903006981 Mg2+ binding site [ion binding]; other site 373903006982 G-X-G motif; other site 373903006983 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 373903006984 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 373903006985 active site 373903006986 phosphorylation site [posttranslational modification] 373903006987 intermolecular recognition site; other site 373903006988 dimerization interface [polypeptide binding]; other site 373903006989 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 373903006990 DNA binding site [nucleotide binding] 373903006991 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 373903006992 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 373903006993 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 373903006994 PhoU domain; Region: PhoU; pfam01895 373903006995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903006996 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 373903006997 Glyco_18 domain; Region: Glyco_18; smart00636 373903006998 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 373903006999 active site 373903007000 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 373903007001 YabG peptidase U57; Region: Peptidase_U57; pfam05582 373903007002 Protein of unknown function (DUF458); Region: DUF458; pfam04308 373903007003 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 373903007004 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 373903007005 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 373903007006 Major Facilitator Superfamily; Region: MFS_1; pfam07690 373903007007 putative substrate translocation pore; other site 373903007008 Protein of unknown function (DUF441); Region: DUF441; pfam04284 373903007009 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 373903007010 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 373903007011 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 373903007012 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 373903007013 active site 373903007014 intersubunit interactions; other site 373903007015 catalytic residue [active] 373903007016 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 373903007017 Glyco_18 domain; Region: Glyco_18; smart00636 373903007018 active site 373903007019 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 373903007020 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 373903007021 active site 373903007022 phosphorylation site [posttranslational modification] 373903007023 intermolecular recognition site; other site 373903007024 dimerization interface [polypeptide binding]; other site 373903007025 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 373903007026 DNA binding residues [nucleotide binding] 373903007027 dimerization interface [polypeptide binding]; other site 373903007028 Sensor protein DegS; Region: DegS; pfam05384 373903007029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 373903007030 Histidine kinase; Region: HisKA_3; pfam07730 373903007031 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 373903007032 ATP binding site [chemical binding]; other site 373903007033 Mg2+ binding site [ion binding]; other site 373903007034 G-X-G motif; other site 373903007035 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 373903007036 dimerization interface [polypeptide binding]; other site 373903007037 ligand binding site [chemical binding]; other site 373903007038 NADP binding site [chemical binding]; other site 373903007039 catalytic site [active] 373903007040 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007041 dimer interface [polypeptide binding]; other site 373903007042 putative CheW interface [polypeptide binding]; other site 373903007043 Ferredoxin [Energy production and conversion]; Region: COG1146 373903007044 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 373903007045 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903007046 nucleotide binding site [chemical binding]; other site 373903007047 Acetokinase family; Region: Acetate_kinase; cl17229 373903007048 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 373903007049 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 373903007050 catalytic triad [active] 373903007051 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 373903007052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 373903007053 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 373903007054 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 373903007055 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 373903007056 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 373903007057 active site 373903007058 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 373903007059 H+ Antiporter protein; Region: 2A0121; TIGR00900 373903007060 putative substrate translocation pore; other site 373903007061 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 373903007062 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 373903007063 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 373903007064 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 373903007065 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 373903007066 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 373903007067 motif II; other site 373903007068 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 373903007069 CAAX protease self-immunity; Region: Abi; pfam02517 373903007070 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 373903007071 Heme NO binding; Region: HNOB; pfam07700 373903007072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007073 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903007074 dimer interface [polypeptide binding]; other site 373903007075 putative CheW interface [polypeptide binding]; other site 373903007076 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 373903007077 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 373903007078 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 373903007079 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903007080 Zn2+ binding site [ion binding]; other site 373903007081 Mg2+ binding site [ion binding]; other site 373903007082 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007083 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903007084 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007085 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903007086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007087 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 373903007088 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007089 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007090 stage V sporulation protein B; Region: spore_V_B; TIGR02900 373903007091 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 373903007092 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 373903007093 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 373903007094 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 373903007095 catalytic residue [active] 373903007096 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 373903007097 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 373903007098 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 373903007099 Predicted membrane protein [Function unknown]; Region: COG2323 373903007100 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 373903007101 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 373903007102 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 373903007103 purine monophosphate binding site [chemical binding]; other site 373903007104 dimer interface [polypeptide binding]; other site 373903007105 putative catalytic residues [active] 373903007106 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 373903007107 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 373903007108 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 373903007109 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 373903007110 active site 373903007111 substrate binding site [chemical binding]; other site 373903007112 cosubstrate binding site; other site 373903007113 catalytic site [active] 373903007114 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 373903007115 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 373903007116 dimerization interface [polypeptide binding]; other site 373903007117 putative ATP binding site [chemical binding]; other site 373903007118 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 373903007119 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 373903007120 active site 373903007121 tetramer interface [polypeptide binding]; other site 373903007122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 373903007123 active site 373903007124 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 373903007125 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 373903007126 dimerization interface [polypeptide binding]; other site 373903007127 ATP binding site [chemical binding]; other site 373903007128 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 373903007129 dimerization interface [polypeptide binding]; other site 373903007130 ATP binding site [chemical binding]; other site 373903007131 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 373903007132 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 373903007133 putative active site [active] 373903007134 catalytic triad [active] 373903007135 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 373903007136 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 373903007137 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 373903007138 ATP binding site [chemical binding]; other site 373903007139 active site 373903007140 substrate binding site [chemical binding]; other site 373903007141 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 373903007142 Adenylsuccinate lyase (ASL)_like; Region: Adenylsuccinate_lyase_like; cd01595 373903007143 tetramer interface [polypeptide binding]; other site 373903007144 active site 373903007145 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 373903007146 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 373903007147 ParB-like nuclease domain; Region: ParB; smart00470 373903007148 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 373903007149 FAD binding domain; Region: FAD_binding_4; pfam01565 373903007150 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 373903007151 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 373903007152 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 373903007153 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 373903007154 active site 373903007155 dimer interface [polypeptide binding]; other site 373903007156 effector binding site; other site 373903007157 TSCPD domain; Region: TSCPD; pfam12637 373903007158 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 373903007159 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 373903007160 SLBB domain; Region: SLBB; pfam10531 373903007161 SLBB domain; Region: SLBB; pfam10531 373903007162 Chain length determinant protein; Region: Wzz; pfam02706 373903007163 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 373903007164 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 373903007165 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 373903007166 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 373903007167 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007168 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 373903007169 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 373903007170 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 373903007171 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 373903007172 FeS/SAM binding site; other site 373903007173 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 373903007174 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 373903007175 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 373903007176 dimer interface [polypeptide binding]; other site 373903007177 conserved gate region; other site 373903007178 ABC-ATPase subunit interface; other site 373903007179 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 373903007180 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 373903007181 Walker A/P-loop; other site 373903007182 ATP binding site [chemical binding]; other site 373903007183 Q-loop/lid; other site 373903007184 ABC transporter signature motif; other site 373903007185 Walker B; other site 373903007186 D-loop; other site 373903007187 H-loop/switch region; other site 373903007188 NIL domain; Region: NIL; pfam09383 373903007189 Membrane transport protein; Region: Mem_trans; cl09117 373903007190 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 373903007191 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 373903007192 transmembrane helices; other site 373903007193 Domain of unknown function (DUF3480); Region: DUF3480; pfam11979 373903007194 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 373903007195 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 373903007196 active site 373903007197 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 373903007198 Uncharacterized conserved protein [Function unknown]; Region: COG1434 373903007199 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 373903007200 putative active site [active] 373903007201 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 373903007202 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 373903007203 dimerization interface [polypeptide binding]; other site 373903007204 putative DNA binding site [nucleotide binding]; other site 373903007205 putative Zn2+ binding site [ion binding]; other site 373903007206 Cache domain; Region: Cache_1; pfam02743 373903007207 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903007208 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 373903007209 dimerization interface [polypeptide binding]; other site 373903007210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007211 dimer interface [polypeptide binding]; other site 373903007212 putative CheW interface [polypeptide binding]; other site 373903007213 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 373903007214 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 373903007215 active site 373903007216 nucleophile elbow; other site 373903007217 asparagine synthetase B; Provisional; Region: asnB; PRK09431 373903007218 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 373903007219 active site 373903007220 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 373903007221 Ligand Binding Site [chemical binding]; other site 373903007222 Molecular Tunnel; other site 373903007223 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 373903007224 hypothetical protein; Reviewed; Region: PRK09588 373903007225 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 373903007226 active site 373903007227 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 373903007228 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 373903007229 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 373903007230 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 373903007231 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 373903007232 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 373903007233 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 373903007234 active site 373903007235 Zn binding site [ion binding]; other site 373903007236 Rubredoxin [Energy production and conversion]; Region: COG1773 373903007237 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 373903007238 iron binding site [ion binding]; other site 373903007239 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 373903007240 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 373903007241 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 373903007242 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 373903007243 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 373903007244 Ca binding site [ion binding]; other site 373903007245 active site 373903007246 catalytic site [active] 373903007247 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 373903007248 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 373903007249 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903007250 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903007251 DNA binding site [nucleotide binding] 373903007252 domain linker motif; other site 373903007253 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903007254 dimerization interface [polypeptide binding]; other site 373903007255 ligand binding site [chemical binding]; other site 373903007256 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 373903007257 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 373903007258 Cache domain; Region: Cache_1; pfam02743 373903007259 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 373903007260 dimerization interface [polypeptide binding]; other site 373903007261 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903007262 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007263 dimer interface [polypeptide binding]; other site 373903007264 putative CheW interface [polypeptide binding]; other site 373903007265 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 373903007266 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 373903007267 active site 373903007268 phosphorylation site [posttranslational modification] 373903007269 intermolecular recognition site; other site 373903007270 dimerization interface [polypeptide binding]; other site 373903007271 CheB methylesterase; Region: CheB_methylest; pfam01339 373903007272 CheD chemotactic sensory transduction; Region: CheD; cl00810 373903007273 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 373903007274 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 373903007275 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 373903007276 S-adenosylmethionine binding site [chemical binding]; other site 373903007277 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 373903007278 putative CheA interaction surface; other site 373903007279 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 373903007280 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 373903007281 putative binding surface; other site 373903007282 active site 373903007283 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 373903007284 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 373903007285 ATP binding site [chemical binding]; other site 373903007286 Mg2+ binding site [ion binding]; other site 373903007287 G-X-G motif; other site 373903007288 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 373903007289 Response regulator receiver domain; Region: Response_reg; pfam00072 373903007290 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 373903007291 active site 373903007292 phosphorylation site [posttranslational modification] 373903007293 intermolecular recognition site; other site 373903007294 dimerization interface [polypeptide binding]; other site 373903007295 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 373903007296 anti sigma factor interaction site; other site 373903007297 regulatory phosphorylation site [posttranslational modification]; other site 373903007298 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 373903007299 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007300 dimer interface [polypeptide binding]; other site 373903007301 putative CheW interface [polypeptide binding]; other site 373903007302 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 373903007303 ligand-binding site [chemical binding]; other site 373903007304 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 373903007305 ATP-sulfurylase; Region: ATPS; cd00517 373903007306 active site 373903007307 HXXH motif; other site 373903007308 flexible loop; other site 373903007309 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 373903007310 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 373903007311 dimer interface [polypeptide binding]; other site 373903007312 putative CheW interface [polypeptide binding]; other site 373903007313 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 373903007314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 373903007315 substrate binding site [chemical binding]; other site 373903007316 ATP binding site [chemical binding]; other site 373903007317 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 373903007318 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 373903007319 TM-ABC transporter signature motif; other site 373903007320 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 373903007321 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 373903007322 Walker A/P-loop; other site 373903007323 ATP binding site [chemical binding]; other site 373903007324 Q-loop/lid; other site 373903007325 ABC transporter signature motif; other site 373903007326 Walker B; other site 373903007327 D-loop; other site 373903007328 H-loop/switch region; other site 373903007329 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 373903007330 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 373903007331 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 373903007332 putative ligand binding site [chemical binding]; other site 373903007333 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 373903007334 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 373903007335 putative substrate binding site [chemical binding]; other site 373903007336 putative ATP binding site [chemical binding]; other site 373903007337 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 373903007338 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_1; cd05017 373903007339 dimer interface [polypeptide binding]; other site 373903007340 active site 373903007341 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 373903007342 dimer interface [polypeptide binding]; other site 373903007343 active site 373903007344 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 373903007345 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 373903007346 intersubunit interface [polypeptide binding]; other site 373903007347 active site 373903007348 zinc binding site [ion binding]; other site 373903007349 Na+ binding site [ion binding]; other site 373903007350 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 373903007351 non-specific DNA interactions [nucleotide binding]; other site 373903007352 DNA binding site [nucleotide binding] 373903007353 sequence specific DNA binding site [nucleotide binding]; other site 373903007354 putative cAMP binding site [chemical binding]; other site 373903007355 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 373903007356 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 373903007357 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 373903007358 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 373903007359 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 373903007360 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 373903007361 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 373903007362 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 373903007363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 373903007364 NAD(P) binding site [chemical binding]; other site 373903007365 active site 373903007366 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 373903007367 active site 373903007368 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903007369 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 373903007370 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903007371 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 373903007372 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 373903007373 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 373903007374 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 373903007375 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 373903007376 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 373903007377 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 373903007378 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 373903007379 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 373903007380 Substrate binding site; other site 373903007381 Cupin domain; Region: Cupin_2; cl17218 373903007382 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 373903007383 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 373903007384 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 373903007385 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 373903007386 Chain length determinant protein; Region: Wzz; pfam02706 373903007387 Chain length determinant protein; Region: Wzz; pfam02706 373903007388 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 373903007389 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 373903007390 Bacterial sugar transferase; Region: Bac_transf; pfam02397 373903007391 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 373903007392 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 373903007393 active site 373903007394 trimer interface [polypeptide binding]; other site 373903007395 allosteric site; other site 373903007396 active site lid [active] 373903007397 hexamer (dimer of trimers) interface [polypeptide binding]; other site 373903007398 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 373903007399 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 373903007400 active site 373903007401 dimer interface [polypeptide binding]; other site 373903007402 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 373903007403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 373903007404 DNA-binding site [nucleotide binding]; DNA binding site 373903007405 UTRA domain; Region: UTRA; pfam07702 373903007406 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 373903007407 Predicted amidohydrolase [General function prediction only]; Region: COG0388 373903007408 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 373903007409 active site 373903007410 catalytic triad [active] 373903007411 dimer interface [polypeptide binding]; other site 373903007412 alpha-mannosidase; Provisional; Region: PRK09819 373903007413 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 373903007414 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 373903007415 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 373903007416 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 373903007417 dimer interface [polypeptide binding]; other site 373903007418 conserved gate region; other site 373903007419 putative PBP binding loops; other site 373903007420 ABC-ATPase subunit interface; other site 373903007421 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 373903007422 dimer interface [polypeptide binding]; other site 373903007423 conserved gate region; other site 373903007424 putative PBP binding loops; other site 373903007425 ABC-ATPase subunit interface; other site 373903007426 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 373903007427 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 373903007428 Transcriptional regulators [Transcription]; Region: PurR; COG1609 373903007429 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 373903007430 DNA binding site [nucleotide binding] 373903007431 domain linker motif; other site 373903007432 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 373903007433 dimerization interface [polypeptide binding]; other site 373903007434 ligand binding site [chemical binding]; other site 373903007435 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 373903007436 Zn2+ binding site [ion binding]; other site 373903007437 Mg2+ binding site [ion binding]; other site 373903007438 CotJB protein; Region: CotJB; pfam12652 373903007439 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 373903007440 dimanganese center [ion binding]; other site 373903007441 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 373903007442 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 373903007443 dimer interface [polypeptide binding]; other site 373903007444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903007445 catalytic residue [active] 373903007446 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 373903007447 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 373903007448 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 373903007449 trimer interface [polypeptide binding]; other site 373903007450 active site 373903007451 substrate binding site [chemical binding]; other site 373903007452 CoA binding site [chemical binding]; other site 373903007453 AIR carboxylase; Region: AIRC; pfam00731 373903007454 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 373903007455 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 373903007456 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 373903007457 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 373903007458 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 373903007459 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 373903007460 GDP-binding site [chemical binding]; other site 373903007461 ACT binding site; other site 373903007462 IMP binding site; other site 373903007463 adenylosuccinate lyase; Provisional; Region: PRK07380 373903007464 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 373903007465 tetramer interface [polypeptide binding]; other site 373903007466 active site 373903007467 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 373903007468 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 373903007469 DNA replication protein DnaC; Validated; Region: PRK06835 373903007470 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 373903007471 Walker A motif; other site 373903007472 ATP binding site [chemical binding]; other site 373903007473 Walker B motif; other site 373903007474 arginine finger; other site 373903007475 replicative DNA helicase; Region: DnaB; TIGR00665 373903007476 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 373903007477 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 373903007478 Walker A motif; other site 373903007479 ATP binding site [chemical binding]; other site 373903007480 Walker B motif; other site 373903007481 DNA binding loops [nucleotide binding] 373903007482 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 373903007483 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 373903007484 FeS/SAM binding site; other site 373903007485 Pyruvate formate lyase 1; Region: PFL1; cd01678 373903007486 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 373903007487 coenzyme A binding site [chemical binding]; other site 373903007488 active site 373903007489 catalytic residues [active] 373903007490 glycine loop; other site 373903007491 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 373903007492 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 373903007493 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 373903007494 Ca binding site [ion binding]; other site 373903007495 active site 373903007496 catalytic site [active] 373903007497 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 373903007498 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903007499 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 373903007500 FtsX-like permease family; Region: FtsX; pfam02687 373903007501 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 373903007502 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903007503 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 373903007504 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 373903007505 Walker A/P-loop; other site 373903007506 ATP binding site [chemical binding]; other site 373903007507 Q-loop/lid; other site 373903007508 ABC transporter signature motif; other site 373903007509 Walker B; other site 373903007510 D-loop; other site 373903007511 H-loop/switch region; other site 373903007512 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 373903007513 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903007514 FtsX-like permease family; Region: FtsX; pfam02687 373903007515 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 373903007516 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 373903007517 FtsX-like permease family; Region: FtsX; pfam02687 373903007518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 373903007519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 373903007520 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 373903007521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903007522 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 373903007523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 373903007524 alpha-galactosidase; Provisional; Region: PRK15076 373903007525 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 373903007526 NAD binding site [chemical binding]; other site 373903007527 sugar binding site [chemical binding]; other site 373903007528 divalent metal binding site [ion binding]; other site 373903007529 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 373903007530 dimer interface [polypeptide binding]; other site 373903007531 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 373903007532 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 373903007533 Walker A motif; other site 373903007534 ATP binding site [chemical binding]; other site 373903007535 Walker B motif; other site 373903007536 arginine finger; other site 373903007537 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 373903007538 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 373903007539 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 373903007540 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 373903007541 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 373903007542 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 373903007543 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 373903007544 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 373903007545 dimer interface [polypeptide binding]; other site 373903007546 ssDNA binding site [nucleotide binding]; other site 373903007547 tetramer (dimer of dimers) interface [polypeptide binding]; other site 373903007548 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 373903007549 GTP-binding protein YchF; Reviewed; Region: PRK09601 373903007550 YchF GTPase; Region: YchF; cd01900 373903007551 G1 box; other site 373903007552 GTP/Mg2+ binding site [chemical binding]; other site 373903007553 Switch I region; other site 373903007554 G2 box; other site 373903007555 Switch II region; other site 373903007556 G3 box; other site 373903007557 G4 box; other site 373903007558 G5 box; other site 373903007559 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 373903007560 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 373903007561 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 373903007562 Mechanosensitive ion channel; Region: MS_channel; pfam00924 373903007563 Tetratricopeptide repeat; Region: TPR_16; pfam13432 373903007564 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 373903007565 binding surface 373903007566 TPR motif; other site 373903007567 Tetratricopeptide repeat; Region: TPR_12; pfam13424 373903007568 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 373903007569 tetramer interface [polypeptide binding]; other site 373903007570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903007571 catalytic residue [active] 373903007572 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 373903007573 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 373903007574 tetramer interface [polypeptide binding]; other site 373903007575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 373903007576 catalytic residue [active] 373903007577 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 373903007578 lipoyl attachment site [posttranslational modification]; other site 373903007579 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 373903007580 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 373903007581 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 373903007582 Uncharacterized membrane protein [Function unknown]; Region: COG3949 373903007583 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 373903007584 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 373903007585 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 373903007586 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 373903007587 Peptidase family M23; Region: Peptidase_M23; pfam01551 373903007588 PrcB C-terminal; Region: PrcB_C; pfam14343 373903007589 Protein of unknown function (DUF554); Region: DUF554; pfam04474 373903007590 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 373903007591 ParB-like nuclease domain; Region: ParBc; pfam02195 373903007592 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 373903007593 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 373903007594 P-loop; other site 373903007595 Magnesium ion binding site [ion binding]; other site 373903007596 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 373903007597 Magnesium ion binding site [ion binding]; other site 373903007598 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 373903007599 ParB-like nuclease domain; Region: ParB; smart00470 373903007600 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 373903007601 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 373903007602 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 373903007603 S-adenosylmethionine binding site [chemical binding]; other site 373903007604 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 373903007605 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 373903007606 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 373903007607 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 373903007608 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 373903007609 trmE is a tRNA modification GTPase; Region: trmE; cd04164 373903007610 G1 box; other site 373903007611 GTP/Mg2+ binding site [chemical binding]; other site 373903007612 Switch I region; other site 373903007613 G2 box; other site 373903007614 Switch II region; other site 373903007615 G3 box; other site 373903007616 G4 box; other site 373903007617 G5 box; other site 373903007618 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 373903007619 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 373903007620 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 373903007621 G-X-X-G motif; other site 373903007622 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 373903007623 RxxxH motif; other site 373903007624 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 373903007625 Haemolytic domain; Region: Haemolytic; pfam01809 373903007626 ribonuclease P; Reviewed; Region: rnpA; PRK00499