-- dump date 20140618_205018 -- class Genbank::misc_feature -- table misc_feature_note -- id note 572480000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 572480000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 572480000003 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 572480000004 Walker A motif; other site 572480000005 ATP binding site [chemical binding]; other site 572480000006 Walker B motif; other site 572480000007 arginine finger; other site 572480000008 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 572480000009 DnaA box-binding interface [nucleotide binding]; other site 572480000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 572480000011 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 572480000012 putative DNA binding surface [nucleotide binding]; other site 572480000013 dimer interface [polypeptide binding]; other site 572480000014 beta-clamp/clamp loader binding surface; other site 572480000015 beta-clamp/translesion DNA polymerase binding surface; other site 572480000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 572480000017 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 572480000018 Mg2+ binding site [ion binding]; other site 572480000019 G-X-G motif; other site 572480000020 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 572480000021 anchoring element; other site 572480000022 dimer interface [polypeptide binding]; other site 572480000023 ATP binding site [chemical binding]; other site 572480000024 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 572480000025 active site 572480000026 putative metal-binding site [ion binding]; other site 572480000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572480000028 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 572480000029 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 572480000030 salt bridge; other site 572480000031 non-specific DNA binding site [nucleotide binding]; other site 572480000032 sequence-specific DNA binding site [nucleotide binding]; other site 572480000033 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 572480000034 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 572480000035 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 572480000036 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480000037 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 572480000038 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 572480000039 DctM-like transporters; Region: DctM; pfam06808 572480000040 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 572480000041 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480000042 NAD binding site [chemical binding]; other site 572480000043 catalytic residues [active] 572480000044 substrate binding site [chemical binding]; other site 572480000045 L-rhamnonate dehydratase; Provisional; Region: PRK15440 572480000046 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 572480000047 metal binding site [ion binding]; metal-binding site 572480000048 substrate binding pocket [chemical binding]; other site 572480000049 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 572480000050 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 572480000051 inhibitor site; inhibition site 572480000052 active site 572480000053 dimer interface [polypeptide binding]; other site 572480000054 catalytic residue [active] 572480000055 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572480000056 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 572480000057 Bacterial transcriptional regulator; Region: IclR; pfam01614 572480000058 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480000059 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572480000060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480000061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480000062 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572480000063 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 572480000064 EamA-like transporter family; Region: EamA; cl17759 572480000065 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572480000066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572480000067 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 572480000068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480000069 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 572480000070 Helix-turn-helix domain; Region: HTH_17; cl17695 572480000071 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480000072 EamA-like transporter family; Region: EamA; pfam00892 572480000073 EamA-like transporter family; Region: EamA; pfam00892 572480000074 Predicted membrane protein [Function unknown]; Region: COG1238 572480000075 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 572480000076 TOBE domain; Region: TOBE; pfam03459 572480000077 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 572480000078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480000079 substrate binding pocket [chemical binding]; other site 572480000080 membrane-bound complex binding site; other site 572480000081 hinge residues; other site 572480000082 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480000083 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 572480000084 substrate binding pocket [chemical binding]; other site 572480000085 membrane-bound complex binding site; other site 572480000086 hinge residues; other site 572480000087 PAS domain S-box; Region: sensory_box; TIGR00229 572480000088 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 572480000089 putative active site [active] 572480000090 heme pocket [chemical binding]; other site 572480000091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000092 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 572480000093 ATP binding site [chemical binding]; other site 572480000094 Mg2+ binding site [ion binding]; other site 572480000095 G-X-G motif; other site 572480000096 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 572480000097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480000098 Coenzyme A binding pocket [chemical binding]; other site 572480000099 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 572480000100 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 572480000101 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 572480000102 Walker A motif; other site 572480000103 ATP binding site [chemical binding]; other site 572480000104 Walker B motif; other site 572480000105 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480000106 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 572480000107 Nif-specific regulatory protein; Region: nifA; TIGR01817 572480000108 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 572480000109 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 572480000110 Walker A motif; other site 572480000111 ATP binding site [chemical binding]; other site 572480000112 Walker B motif; other site 572480000113 arginine finger; other site 572480000114 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 572480000115 NifT/FixU protein; Region: NifT; cl02351 572480000116 L-aspartate oxidase; Provisional; Region: PRK06175 572480000117 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 572480000118 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572480000119 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 572480000120 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572480000121 active site 572480000122 catalytic tetrad [active] 572480000123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572480000124 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572480000125 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 572480000126 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 572480000127 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 572480000128 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 572480000129 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 572480000130 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 572480000131 active site 572480000132 TOBE domain; Region: TOBE; cl01440 572480000133 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 572480000134 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 572480000135 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 572480000136 dimer interface [polypeptide binding]; other site 572480000137 conserved gate region; other site 572480000138 putative PBP binding loops; other site 572480000139 ABC-ATPase subunit interface; other site 572480000140 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 572480000141 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572480000142 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 572480000143 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 572480000144 Walker A/P-loop; other site 572480000145 ATP binding site [chemical binding]; other site 572480000146 Q-loop/lid; other site 572480000147 ABC transporter signature motif; other site 572480000148 Walker B; other site 572480000149 D-loop; other site 572480000150 H-loop/switch region; other site 572480000151 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 572480000152 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 572480000153 dimer interface [polypeptide binding]; other site 572480000154 conserved gate region; other site 572480000155 putative PBP binding loops; other site 572480000156 ABC-ATPase subunit interface; other site 572480000157 TOBE domain; Region: TOBE; cl01440 572480000158 TOBE domain; Region: TOBE; cl01440 572480000159 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 572480000160 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572480000161 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 572480000162 TOBE domain; Region: TOBE; cl01440 572480000163 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 572480000164 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 572480000165 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 572480000166 MoFe protein beta/alpha subunit interactions; other site 572480000167 Beta subunit P cluster binding residues; other site 572480000168 MoFe protein beta subunit/Fe protein contacts; other site 572480000169 MoFe protein dimer/ dimer interactions; other site 572480000170 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 572480000171 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 572480000172 MoFe protein alpha/beta subunit interactions; other site 572480000173 Alpha subunit P cluster binding residues; other site 572480000174 FeMoco binding residues [chemical binding]; other site 572480000175 MoFe protein alpha subunit/Fe protein contacts; other site 572480000176 MoFe protein dimer/ dimer interactions; other site 572480000177 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 572480000178 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 572480000179 Nucleotide-binding sites [chemical binding]; other site 572480000180 Walker A motif; other site 572480000181 Switch I region of nucleotide binding site; other site 572480000182 Fe4S4 binding sites [ion binding]; other site 572480000183 Switch II region of nucleotide binding site; other site 572480000184 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572480000185 TrkA-N domain; Region: TrkA_N; pfam02254 572480000186 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 572480000187 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572480000188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000189 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 572480000190 active site 572480000191 phosphorylation site [posttranslational modification] 572480000192 intermolecular recognition site; other site 572480000193 dimerization interface [polypeptide binding]; other site 572480000194 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 572480000195 DNA binding site [nucleotide binding] 572480000196 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 572480000197 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 572480000198 dimer interface [polypeptide binding]; other site 572480000199 phosphorylation site [posttranslational modification] 572480000200 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 572480000201 ATP binding site [chemical binding]; other site 572480000202 Mg2+ binding site [ion binding]; other site 572480000203 G-X-G motif; other site 572480000204 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 572480000205 PAS domain; Region: PAS_9; pfam13426 572480000206 putative active site [active] 572480000207 heme pocket [chemical binding]; other site 572480000208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480000209 dimer interface [polypeptide binding]; other site 572480000210 putative CheW interface [polypeptide binding]; other site 572480000211 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 572480000212 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 572480000213 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 572480000214 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 572480000215 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 572480000216 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 572480000217 catalytic loop [active] 572480000218 iron binding site [ion binding]; other site 572480000219 NifZ domain; Region: NifZ; pfam04319 572480000220 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572480000221 Protein of unknown function, DUF269; Region: DUF269; cl03973 572480000222 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; cl00252 572480000223 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 572480000224 NADPH bind site [chemical binding]; other site 572480000225 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 572480000226 FMN binding site [chemical binding]; other site 572480000227 dimer interface [polypeptide binding]; other site 572480000228 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 572480000229 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 572480000230 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480000231 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572480000232 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 572480000233 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 572480000234 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 572480000235 Domain of unknown function DUF20; Region: UPF0118; pfam01594 572480000236 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 572480000237 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 572480000238 Uncharacterized conserved protein [Function unknown]; Region: COG1433 572480000239 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 572480000240 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 572480000241 TPR motif; other site 572480000242 binding surface 572480000243 NifU-like domain; Region: NifU; cl00484 572480000244 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 572480000245 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 572480000246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572480000247 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572480000248 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572480000249 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 572480000250 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 572480000251 FeS/SAM binding site; other site 572480000252 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; cl00252 572480000253 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 572480000254 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 572480000255 active site 572480000256 catalytic residues [active] 572480000257 metal binding site [ion binding]; metal-binding site 572480000258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 572480000259 Leucine rich repeat; Region: LRR_8; pfam13855 572480000260 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572480000261 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572480000262 active site 572480000263 adenylosuccinate lyase; Provisional; Region: PRK08470 572480000264 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 572480000265 tetramer interface [polypeptide binding]; other site 572480000266 active site 572480000267 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 572480000268 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 572480000269 ATP cone domain; Region: ATP-cone; pfam03477 572480000270 Class I ribonucleotide reductase; Region: RNR_I; cd01679 572480000271 active site 572480000272 dimer interface [polypeptide binding]; other site 572480000273 catalytic residues [active] 572480000274 effector binding site; other site 572480000275 R2 peptide binding site; other site 572480000276 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 572480000277 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 572480000278 dimer interface [polypeptide binding]; other site 572480000279 putative radical transfer pathway; other site 572480000280 diiron center [ion binding]; other site 572480000281 tyrosyl radical; other site 572480000282 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480000283 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480000284 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480000285 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480000286 metal binding site [ion binding]; metal-binding site 572480000287 active site 572480000288 I-site; other site 572480000289 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 572480000290 active site 572480000291 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480000292 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 572480000293 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480000294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480000295 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 572480000296 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 572480000297 dimer interface [polypeptide binding]; other site 572480000298 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572480000299 metal binding site [ion binding]; metal-binding site 572480000300 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572480000301 ligand binding site [chemical binding]; other site 572480000302 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572480000303 Uncharacterized conserved protein [Function unknown]; Region: COG3743 572480000304 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 572480000305 Low molecular weight phosphatase family; Region: LMWPc; cd00115 572480000306 active site 572480000307 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572480000308 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 572480000309 active site 572480000310 catalytic triad [active] 572480000311 dimer interface [polypeptide binding]; other site 572480000312 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 572480000313 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 572480000314 active site 572480000315 substrate binding site [chemical binding]; other site 572480000316 metal binding site [ion binding]; metal-binding site 572480000317 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480000318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000319 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 572480000320 active site 572480000321 phosphorylation site [posttranslational modification] 572480000322 intermolecular recognition site; other site 572480000323 dimerization interface [polypeptide binding]; other site 572480000324 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480000325 DNA binding site [nucleotide binding] 572480000326 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480000327 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480000328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 572480000329 Histidine kinase; Region: HisKA_2; pfam07568 572480000330 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 572480000331 ATP binding site [chemical binding]; other site 572480000332 Mg2+ binding site [ion binding]; other site 572480000333 G-X-G motif; other site 572480000334 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 572480000335 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 572480000336 putative catalytic cysteine [active] 572480000337 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 572480000338 dimerization interface [polypeptide binding]; other site 572480000339 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 572480000340 cyclase homology domain; Region: CHD; cd07302 572480000341 nucleotidyl binding site; other site 572480000342 metal binding site [ion binding]; metal-binding site 572480000343 dimer interface [polypeptide binding]; other site 572480000344 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 572480000345 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 572480000346 NADP binding site [chemical binding]; other site 572480000347 dimer interface [polypeptide binding]; other site 572480000348 Predicted transcriptional regulators [Transcription]; Region: COG1733 572480000349 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572480000350 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 572480000351 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 572480000352 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572480000353 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 572480000354 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572480000355 MarR family; Region: MarR_2; pfam12802 572480000356 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 572480000357 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 572480000358 GatB domain; Region: GatB_Yqey; smart00845 572480000359 SurA N-terminal domain; Region: SurA_N; pfam09312 572480000360 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 572480000361 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 572480000362 FAD binding domain; Region: FAD_binding_4; pfam01565 572480000363 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 572480000364 4Fe-4S binding domain; Region: Fer4; pfam00037 572480000365 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 572480000366 DctM-like transporters; Region: DctM; pfam06808 572480000367 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 572480000368 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572480000369 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480000370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000371 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 572480000372 active site 572480000373 phosphorylation site [posttranslational modification] 572480000374 intermolecular recognition site; other site 572480000375 dimerization interface [polypeptide binding]; other site 572480000376 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 572480000377 DNA binding site [nucleotide binding] 572480000378 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572480000379 PAS fold; Region: PAS_4; pfam08448 572480000380 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 572480000381 putative active site [active] 572480000382 heme pocket [chemical binding]; other site 572480000383 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000384 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 572480000385 ATP binding site [chemical binding]; other site 572480000386 G-X-G motif; other site 572480000387 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 572480000388 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 572480000389 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 572480000390 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 572480000391 Cysteine-rich domain; Region: CCG; pfam02754 572480000392 Cysteine-rich domain; Region: CCG; pfam02754 572480000393 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 572480000394 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 572480000395 catalytic motif [active] 572480000396 Zn binding site [ion binding]; other site 572480000397 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 572480000398 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 572480000399 carboxyltransferase (CT) interaction site; other site 572480000400 biotinylation site [posttranslational modification]; other site 572480000401 biotin carboxylase; Validated; Region: PRK08462 572480000402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572480000403 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572480000404 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 572480000405 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 572480000406 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 572480000407 ATP binding site [chemical binding]; other site 572480000408 Mg++ binding site [ion binding]; other site 572480000409 motif III; other site 572480000410 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 572480000411 nucleotide binding region [chemical binding]; other site 572480000412 ATP-binding site [chemical binding]; other site 572480000413 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 572480000414 Phosphate transporter family; Region: PHO4; pfam01384 572480000415 Predicted permeases [General function prediction only]; Region: COG0679 572480000416 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 572480000417 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 572480000418 active site 572480000419 dimer interface [polypeptide binding]; other site 572480000420 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 572480000421 Ligand Binding Site [chemical binding]; other site 572480000422 Molecular Tunnel; other site 572480000423 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 572480000424 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 572480000425 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 572480000426 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 572480000427 L-aspartate oxidase; Provisional; Region: PRK06175 572480000428 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572480000429 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 572480000430 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 572480000431 putative ligand binding site [chemical binding]; other site 572480000432 putative NAD binding site [chemical binding]; other site 572480000433 catalytic site [active] 572480000434 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572480000435 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 572480000436 putative active site [active] 572480000437 PhoH-like protein; Region: PhoH; pfam02562 572480000438 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 572480000439 recombination factor protein RarA; Reviewed; Region: PRK13342 572480000440 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 572480000441 Walker A motif; other site 572480000442 ATP binding site [chemical binding]; other site 572480000443 Walker B motif; other site 572480000444 arginine finger; other site 572480000445 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 572480000446 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572480000447 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 572480000448 RNA binding surface [nucleotide binding]; other site 572480000449 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 572480000450 active site 572480000451 KpsF/GutQ family protein; Region: kpsF; TIGR00393 572480000452 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 572480000453 putative active site [active] 572480000454 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 572480000455 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 572480000456 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 572480000457 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 572480000458 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 572480000459 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 572480000460 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 572480000461 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 572480000462 substrate binding site [chemical binding]; other site 572480000463 glutamase interaction surface [polypeptide binding]; other site 572480000464 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 572480000465 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 572480000466 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 572480000467 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 572480000468 FeS/SAM binding site; other site 572480000469 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 572480000470 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572480000471 active site 572480000472 HIGH motif; other site 572480000473 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572480000474 active site 572480000475 KMSKS motif; other site 572480000476 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 572480000477 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572480000478 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 572480000479 metal-binding site [ion binding] 572480000480 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572480000481 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 572480000482 motif II; other site 572480000483 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000484 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 572480000485 active site 572480000486 phosphorylation site [posttranslational modification] 572480000487 intermolecular recognition site; other site 572480000488 dimerization interface [polypeptide binding]; other site 572480000489 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 572480000490 DNA binding site [nucleotide binding] 572480000491 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000492 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 572480000493 dimer interface [polypeptide binding]; other site 572480000494 phosphorylation site [posttranslational modification] 572480000495 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 572480000496 ATP binding site [chemical binding]; other site 572480000497 Mg2+ binding site [ion binding]; other site 572480000498 G-X-G motif; other site 572480000499 YtkA-like; Region: YtkA; pfam13115 572480000500 Outer membrane efflux protein; Region: OEP; pfam02321 572480000501 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480000502 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480000503 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 572480000504 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 572480000505 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572480000506 homoserine dehydrogenase; Provisional; Region: PRK06349 572480000507 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 572480000508 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 572480000509 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 572480000510 aspartate aminotransferase; Provisional; Region: PRK08636 572480000511 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 572480000512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480000513 homodimer interface [polypeptide binding]; other site 572480000514 catalytic residue [active] 572480000515 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 572480000516 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 572480000517 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 572480000518 Predicted methyltransferases [General function prediction only]; Region: COG0313 572480000519 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 572480000520 putative SAM binding site [chemical binding]; other site 572480000521 putative homodimer interface [polypeptide binding]; other site 572480000522 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 572480000523 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 572480000524 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 572480000525 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572480000526 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 572480000527 putative active site [active] 572480000528 catalytic triad [active] 572480000529 putative dimer interface [polypeptide binding]; other site 572480000530 prenyltransferase; Reviewed; Region: ubiA; PRK12874 572480000531 UbiA prenyltransferase family; Region: UbiA; pfam01040 572480000532 Helix-turn-helix domain; Region: HTH_17; pfam12728 572480000533 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 572480000534 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 572480000535 phosphodiesterase; Provisional; Region: PRK12704 572480000536 Bacterial PH domain; Region: DUF304; pfam03703 572480000537 Domain of unknown function (DUF955); Region: DUF955; pfam06114 572480000538 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 572480000539 active site 572480000540 catalytic residues [active] 572480000541 DNA binding site [nucleotide binding] 572480000542 Int/Topo IB signature motif; other site 572480000543 Rio2, N-terminal; Region: Rio2_N; pfam09202 572480000544 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572480000545 active site 572480000546 ATP binding site [chemical binding]; other site 572480000547 substrate binding site [chemical binding]; other site 572480000548 activation loop (A-loop); other site 572480000549 Protein phosphatase 2C; Region: PP2C; pfam00481 572480000550 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 572480000551 active site 572480000552 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 572480000553 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480000554 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 572480000555 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 572480000556 DctM-like transporters; Region: DctM; pfam06808 572480000557 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 572480000558 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 572480000559 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572480000560 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 572480000561 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 572480000562 putative active site [active] 572480000563 heme pocket [chemical binding]; other site 572480000564 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000565 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 572480000566 dimer interface [polypeptide binding]; other site 572480000567 phosphorylation site [posttranslational modification] 572480000568 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 572480000569 ATP binding site [chemical binding]; other site 572480000570 G-X-G motif; other site 572480000571 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572480000572 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 572480000573 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 572480000574 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 572480000575 active site 572480000576 motif I; other site 572480000577 motif II; other site 572480000578 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 572480000579 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 572480000580 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 572480000581 MOFRL family; Region: MOFRL; pfam05161 572480000582 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 572480000583 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 572480000584 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 572480000585 active site 572480000586 homodimer interface [polypeptide binding]; other site 572480000587 catalytic site [active] 572480000588 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 572480000589 active site 572480000590 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 572480000591 tetramer interface; other site 572480000592 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 572480000593 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 572480000594 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 572480000595 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 572480000596 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 572480000597 putative active site [active] 572480000598 phosphogluconate dehydratase; Validated; Region: PRK09054 572480000599 6-phosphogluconate dehydratase; Region: edd; TIGR01196 572480000600 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 572480000601 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 572480000602 active site 572480000603 intersubunit interface [polypeptide binding]; other site 572480000604 catalytic residue [active] 572480000605 phosphoglucomutase; Validated; Region: PRK07564 572480000606 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 572480000607 active site 572480000608 substrate binding site [chemical binding]; other site 572480000609 metal binding site [ion binding]; metal-binding site 572480000610 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 572480000611 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 572480000612 active site 572480000613 dimer interface [polypeptide binding]; other site 572480000614 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 572480000615 dimer interface [polypeptide binding]; other site 572480000616 active site 572480000617 Protein of unknown function (DUF523); Region: DUF523; pfam04463 572480000618 Uncharacterized conserved protein [Function unknown]; Region: COG3272 572480000619 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 572480000620 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 572480000621 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 572480000622 PhnA protein; Region: PhnA; pfam03831 572480000623 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 572480000624 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572480000625 ATP-grasp domain; Region: ATP-grasp; pfam02222 572480000626 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 572480000627 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 572480000628 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 572480000629 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 572480000630 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 572480000631 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 572480000632 CoA-binding site [chemical binding]; other site 572480000633 ATP-binding [chemical binding]; other site 572480000634 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 572480000635 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 572480000636 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 572480000637 dimerization interface [polypeptide binding]; other site 572480000638 putative ATP binding site [chemical binding]; other site 572480000639 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 572480000640 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 572480000641 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 572480000642 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 572480000643 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 572480000644 putative active site [active] 572480000645 metal binding site [ion binding]; metal-binding site 572480000646 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572480000647 MarR family; Region: MarR; pfam01047 572480000648 MarR family; Region: MarR_2; cl17246 572480000649 Pirin-related protein [General function prediction only]; Region: COG1741 572480000650 Pirin; Region: Pirin; pfam02678 572480000651 Predicted flavoprotein [General function prediction only]; Region: COG0431 572480000652 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572480000653 Uncharacterized conserved protein [Function unknown]; Region: COG2353 572480000654 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 572480000655 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480000656 catalytic residue [active] 572480000657 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 572480000658 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 572480000659 motif 1; other site 572480000660 dimer interface [polypeptide binding]; other site 572480000661 active site 572480000662 motif 2; other site 572480000663 motif 3; other site 572480000664 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 572480000665 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 572480000666 GDP-binding site [chemical binding]; other site 572480000667 ACT binding site; other site 572480000668 IMP binding site; other site 572480000669 Protein of unknown function (DUF507); Region: DUF507; pfam04368 572480000670 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 572480000671 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 572480000672 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 572480000673 catalytic site [active] 572480000674 subunit interface [polypeptide binding]; other site 572480000675 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572480000676 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 572480000677 ligand binding site [chemical binding]; other site 572480000678 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 572480000679 tetramer interfaces [polypeptide binding]; other site 572480000680 binuclear metal-binding site [ion binding]; other site 572480000681 Response regulator receiver domain; Region: Response_reg; pfam00072 572480000682 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 572480000683 active site 572480000684 phosphorylation site [posttranslational modification] 572480000685 dimerization interface [polypeptide binding]; other site 572480000686 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 572480000687 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 572480000688 substrate binding site; other site 572480000689 dimer interface; other site 572480000690 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 572480000691 homotrimer interaction site [polypeptide binding]; other site 572480000692 zinc binding site [ion binding]; other site 572480000693 CDP-binding sites; other site 572480000694 HDOD domain; Region: HDOD; pfam08668 572480000695 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 572480000696 ThiC family; Region: ThiC; pfam01964 572480000697 Domain of unknown function DUF59; Region: DUF59; pfam01883 572480000698 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 572480000699 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 572480000700 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 572480000701 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 572480000702 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480000703 catalytic residue [active] 572480000704 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 572480000705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480000706 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 572480000707 catalytic residue [active] 572480000708 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 572480000709 homodimer interface [polypeptide binding]; other site 572480000710 chemical substrate binding site [chemical binding]; other site 572480000711 oligomer interface [polypeptide binding]; other site 572480000712 metal binding site [ion binding]; metal-binding site 572480000713 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 572480000714 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 572480000715 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 572480000716 metal binding site [ion binding]; metal-binding site 572480000717 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 572480000718 SPFH domain / Band 7 family; Region: Band_7; pfam01145 572480000719 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 572480000720 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 572480000721 homodimer interface [polypeptide binding]; other site 572480000722 substrate-cofactor binding pocket; other site 572480000723 catalytic residue [active] 572480000724 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 572480000725 S-adenosylmethionine binding site [chemical binding]; other site 572480000726 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 572480000727 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 572480000728 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 572480000729 substrate binding pocket [chemical binding]; other site 572480000730 dimer interface [polypeptide binding]; other site 572480000731 inhibitor binding site; inhibition site 572480000732 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 572480000733 B12 binding site [chemical binding]; other site 572480000734 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 572480000735 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572480000736 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 572480000737 glutamine synthetase; Region: PLN02284 572480000738 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 572480000739 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 572480000740 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572480000741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480000742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480000743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480000744 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480000745 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 572480000746 S-ribosylhomocysteinase; Provisional; Region: PRK02260 572480000747 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 572480000748 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 572480000749 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 572480000750 metal ion-dependent adhesion site (MIDAS); other site 572480000751 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 572480000752 Walker A motif; other site 572480000753 ATP binding site [chemical binding]; other site 572480000754 Walker B motif; other site 572480000755 arginine finger; other site 572480000756 Hemerythrin; Region: Hemerythrin; cd12107 572480000757 Fe binding site [ion binding]; other site 572480000758 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 572480000759 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 572480000760 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 572480000761 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 572480000762 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 572480000763 active site clefts [active] 572480000764 zinc binding site [ion binding]; other site 572480000765 dimer interface [polypeptide binding]; other site 572480000766 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480000767 PAS domain S-box; Region: sensory_box; TIGR00229 572480000768 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 572480000769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000770 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; cl00080 572480000771 dimer interface [polypeptide binding]; other site 572480000772 phosphorylation site [posttranslational modification] 572480000773 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 572480000774 ATP binding site [chemical binding]; other site 572480000775 Mg2+ binding site [ion binding]; other site 572480000776 G-X-G motif; other site 572480000777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000778 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 572480000779 active site 572480000780 phosphorylation site [posttranslational modification] 572480000781 intermolecular recognition site; other site 572480000782 dimerization interface [polypeptide binding]; other site 572480000783 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; cl17355 572480000784 DNA binding site [nucleotide binding] 572480000785 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572480000786 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572480000787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572480000788 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 572480000789 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 572480000790 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 572480000791 TPP-binding site [chemical binding]; other site 572480000792 putative dimer interface [polypeptide binding]; other site 572480000793 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 572480000794 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 572480000795 dimer interface [polypeptide binding]; other site 572480000796 PYR/PP interface [polypeptide binding]; other site 572480000797 TPP binding site [chemical binding]; other site 572480000798 substrate binding site [chemical binding]; other site 572480000799 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 572480000800 4Fe-4S binding domain; Region: Fer4; pfam00037 572480000801 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 572480000802 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 572480000803 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 572480000804 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 572480000805 motif II; other site 572480000806 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572480000807 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 572480000808 peptide binding site [polypeptide binding]; other site 572480000809 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 572480000810 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 572480000811 23S rRNA interface [nucleotide binding]; other site 572480000812 L3 interface [polypeptide binding]; other site 572480000813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480000814 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 572480000815 dimer interface [polypeptide binding]; other site 572480000816 phosphorylation site [posttranslational modification] 572480000817 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 572480000818 ATP binding site [chemical binding]; other site 572480000819 Mg2+ binding site [ion binding]; other site 572480000820 G-X-G motif; other site 572480000821 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480000822 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 572480000823 active site 572480000824 phosphorylation site [posttranslational modification] 572480000825 intermolecular recognition site; other site 572480000826 dimerization interface [polypeptide binding]; other site 572480000827 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 572480000828 DNA binding site [nucleotide binding] 572480000829 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 572480000830 PhoU domain; Region: PhoU; pfam01895 572480000831 PhoU domain; Region: PhoU; pfam01895 572480000832 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480000833 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 572480000834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480000835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480000836 metal binding site [ion binding]; metal-binding site 572480000837 active site 572480000838 I-site; other site 572480000839 peptide chain release factor 1; Validated; Region: prfA; PRK00591 572480000840 This domain is found in peptide chain release factors; Region: PCRF; smart00937 572480000841 RF-1 domain; Region: RF-1; pfam00472 572480000842 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 572480000843 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 572480000844 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 572480000845 active site 572480000846 substrate binding site [chemical binding]; other site 572480000847 metal binding site [ion binding]; metal-binding site 572480000848 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 572480000849 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 572480000850 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 572480000851 substrate binding site [chemical binding]; other site 572480000852 ligand binding site [chemical binding]; other site 572480000853 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 572480000854 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 572480000855 GTP binding site; other site 572480000856 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 572480000857 23S rRNA binding site [nucleotide binding]; other site 572480000858 L21 binding site [polypeptide binding]; other site 572480000859 L13 binding site [polypeptide binding]; other site 572480000860 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 572480000861 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 572480000862 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 572480000863 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 572480000864 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 572480000865 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 572480000866 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 572480000867 active site 572480000868 dimer interface [polypeptide binding]; other site 572480000869 motif 1; other site 572480000870 motif 2; other site 572480000871 motif 3; other site 572480000872 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 572480000873 anticodon binding site; other site 572480000874 Domain of unknown function (DUF814); Region: DUF814; pfam05670 572480000875 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 572480000876 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 572480000877 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 572480000878 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 572480000879 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 572480000880 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 572480000881 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 572480000882 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 572480000883 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480000884 UGMP family protein; Validated; Region: PRK09604 572480000885 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 572480000886 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 572480000887 putative rRNA binding site [nucleotide binding]; other site 572480000888 Uncharacterized conserved protein [Function unknown]; Region: COG0062 572480000889 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 572480000890 putative substrate binding site [chemical binding]; other site 572480000891 putative ATP binding site [chemical binding]; other site 572480000892 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 572480000893 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 572480000894 ThiS interaction site; other site 572480000895 putative active site [active] 572480000896 tetramer interface [polypeptide binding]; other site 572480000897 AzlC protein; Region: AzlC; cl00570 572480000898 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572480000899 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480000900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480000901 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480000902 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 572480000903 substrate binding pocket [chemical binding]; other site 572480000904 membrane-bound complex binding site; other site 572480000905 hinge residues; other site 572480000906 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 572480000907 agmatinase; Region: agmatinase; TIGR01230 572480000908 oligomer interface [polypeptide binding]; other site 572480000909 putative active site [active] 572480000910 Mn binding site [ion binding]; other site 572480000911 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572480000912 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 572480000913 dimer interface [polypeptide binding]; other site 572480000914 conserved gate region; other site 572480000915 putative PBP binding loops; other site 572480000916 ABC-ATPase subunit interface; other site 572480000917 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 572480000918 dimer interface [polypeptide binding]; other site 572480000919 conserved gate region; other site 572480000920 putative PBP binding loops; other site 572480000921 ABC-ATPase subunit interface; other site 572480000922 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572480000923 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572480000924 Walker A/P-loop; other site 572480000925 ATP binding site [chemical binding]; other site 572480000926 Q-loop/lid; other site 572480000927 ABC transporter signature motif; other site 572480000928 Walker B; other site 572480000929 D-loop; other site 572480000930 H-loop/switch region; other site 572480000931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572480000932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572480000933 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 572480000934 dimerization interface [polypeptide binding]; other site 572480000935 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480000936 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480000937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 572480000938 Histidine kinase; Region: HisKA_2; pfam07568 572480000939 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 572480000940 ATP binding site [chemical binding]; other site 572480000941 Mg2+ binding site [ion binding]; other site 572480000942 G-X-G motif; other site 572480000943 Response regulator receiver domain; Region: Response_reg; pfam00072 572480000944 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 572480000945 active site 572480000946 phosphorylation site [posttranslational modification] 572480000947 intermolecular recognition site; other site 572480000948 dimerization interface [polypeptide binding]; other site 572480000949 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480000950 DNA binding site [nucleotide binding] 572480000951 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 572480000952 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 572480000953 Walker A/P-loop; other site 572480000954 ATP binding site [chemical binding]; other site 572480000955 Q-loop/lid; other site 572480000956 ABC transporter signature motif; other site 572480000957 Walker B; other site 572480000958 D-loop; other site 572480000959 H-loop/switch region; other site 572480000960 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 572480000961 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 572480000962 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 572480000963 dimer interface [polypeptide binding]; other site 572480000964 conserved gate region; other site 572480000965 putative PBP binding loops; other site 572480000966 ABC-ATPase subunit interface; other site 572480000967 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 572480000968 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 572480000969 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 572480000970 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 572480000971 Bacterial transcriptional regulator; Region: IclR; pfam01614 572480000972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572480000973 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572480000974 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 572480000975 hypothetical protein; Validated; Region: PRK06201 572480000976 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572480000977 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 572480000978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480000979 catalytic residue [active] 572480000980 Acylphosphatase; Region: Acylphosphatase; pfam00708 572480000981 putative hydrolase; Provisional; Region: PRK02113 572480000982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 572480000983 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572480000984 putative catalytic site [active] 572480000985 putative metal binding site [ion binding]; other site 572480000986 putative phosphate binding site [ion binding]; other site 572480000987 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 572480000988 Guanylate kinase; Region: Guanylate_kin; pfam00625 572480000989 active site 572480000990 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 572480000991 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 572480000992 trimer interface [polypeptide binding]; other site 572480000993 active site 572480000994 substrate binding site [chemical binding]; other site 572480000995 CoA binding site [chemical binding]; other site 572480000996 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 572480000997 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 572480000998 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 572480000999 active site 572480001000 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480001001 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 572480001002 Walker A/P-loop; other site 572480001003 ATP binding site [chemical binding]; other site 572480001004 Q-loop/lid; other site 572480001005 ABC transporter signature motif; other site 572480001006 Walker B; other site 572480001007 D-loop; other site 572480001008 H-loop/switch region; other site 572480001009 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572480001010 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 572480001011 Walker A/P-loop; other site 572480001012 ATP binding site [chemical binding]; other site 572480001013 Q-loop/lid; other site 572480001014 ABC transporter signature motif; other site 572480001015 Walker B; other site 572480001016 D-loop; other site 572480001017 H-loop/switch region; other site 572480001018 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 572480001019 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 572480001020 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 572480001021 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 572480001022 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 572480001023 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 572480001024 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 572480001025 dimer interface [polypeptide binding]; other site 572480001026 conserved gate region; other site 572480001027 putative PBP binding loops; other site 572480001028 ABC-ATPase subunit interface; other site 572480001029 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 572480001030 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 572480001031 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 572480001032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480001033 Walker A/P-loop; other site 572480001034 ATP binding site [chemical binding]; other site 572480001035 Q-loop/lid; other site 572480001036 ABC transporter signature motif; other site 572480001037 Walker B; other site 572480001038 D-loop; other site 572480001039 H-loop/switch region; other site 572480001040 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572480001041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480001042 DNA-binding site [nucleotide binding]; DNA binding site 572480001043 UTRA domain; Region: UTRA; pfam07702 572480001044 PAS domain S-box; Region: sensory_box; TIGR00229 572480001045 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 572480001046 putative active site [active] 572480001047 heme pocket [chemical binding]; other site 572480001048 PAS domain; Region: PAS_9; pfam13426 572480001049 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 572480001050 dimer interface [polypeptide binding]; other site 572480001051 phosphorylation site [posttranslational modification] 572480001052 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 572480001053 ATP binding site [chemical binding]; other site 572480001054 Mg2+ binding site [ion binding]; other site 572480001055 G-X-G motif; other site 572480001056 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 572480001057 Response regulator receiver domain; Region: Response_reg; pfam00072 572480001058 active site 572480001059 phosphorylation site [posttranslational modification] 572480001060 intermolecular recognition site; other site 572480001061 dimerization interface [polypeptide binding]; other site 572480001062 Hpt domain; Region: Hpt; pfam01627 572480001063 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001064 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 572480001065 active site 572480001066 phosphorylation site [posttranslational modification] 572480001067 intermolecular recognition site; other site 572480001068 dimerization interface [polypeptide binding]; other site 572480001069 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 572480001070 DNA binding site [nucleotide binding] 572480001071 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 572480001072 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 572480001073 active site 572480001074 zinc binding site [ion binding]; other site 572480001075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480001076 dimer interface [polypeptide binding]; other site 572480001077 putative CheW interface [polypeptide binding]; other site 572480001078 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 572480001079 active site 572480001080 tetramer interface; other site 572480001081 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 572480001082 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 572480001083 active site 572480001084 dimer interface [polypeptide binding]; other site 572480001085 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 572480001086 dimer interface [polypeptide binding]; other site 572480001087 active site 572480001088 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 572480001089 PLD-like domain; Region: PLDc_2; pfam13091 572480001090 putative homodimer interface [polypeptide binding]; other site 572480001091 putative active site [active] 572480001092 catalytic site [active] 572480001093 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572480001094 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 572480001095 ATP binding site [chemical binding]; other site 572480001096 putative Mg++ binding site [ion binding]; other site 572480001097 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 572480001098 nucleotide binding region [chemical binding]; other site 572480001099 ATP-binding site [chemical binding]; other site 572480001100 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 572480001101 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 572480001102 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 572480001103 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 572480001104 Imelysin; Region: Peptidase_M75; cl09159 572480001105 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 572480001106 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 572480001107 Imelysin; Region: Peptidase_M75; cl09159 572480001108 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480001109 Outer membrane efflux protein; Region: OEP; pfam02321 572480001110 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480001111 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480001112 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480001113 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480001114 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572480001115 Walker A/P-loop; other site 572480001116 ATP binding site [chemical binding]; other site 572480001117 Q-loop/lid; other site 572480001118 ABC transporter signature motif; other site 572480001119 Walker B; other site 572480001120 D-loop; other site 572480001121 H-loop/switch region; other site 572480001122 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572480001123 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 572480001124 FtsX-like permease family; Region: FtsX; pfam02687 572480001125 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 572480001126 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 572480001127 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 572480001128 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 572480001129 DNA photolyase; Region: DNA_photolyase; pfam00875 572480001130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480001131 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 572480001132 Histidine kinase; Region: His_kinase; pfam06580 572480001133 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 572480001134 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 572480001135 active site 572480001136 phosphorylation site [posttranslational modification] 572480001137 intermolecular recognition site; other site 572480001138 dimerization interface [polypeptide binding]; other site 572480001139 LytTr DNA-binding domain; Region: LytTR; smart00850 572480001140 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 572480001141 catalytic residues [active] 572480001142 dimer interface [polypeptide binding]; other site 572480001143 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 572480001144 putative hydrophobic ligand binding site [chemical binding]; other site 572480001145 ferrochelatase; Reviewed; Region: hemH; PRK00035 572480001146 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 572480001147 C-terminal domain interface [polypeptide binding]; other site 572480001148 active site 572480001149 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 572480001150 active site 572480001151 N-terminal domain interface [polypeptide binding]; other site 572480001152 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 572480001153 ABC1 family; Region: ABC1; cl17513 572480001154 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 572480001155 dimer interface [polypeptide binding]; other site 572480001156 substrate binding site [chemical binding]; other site 572480001157 ATP binding site [chemical binding]; other site 572480001158 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480001159 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480001160 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 572480001161 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480001162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480001163 dimer interface [polypeptide binding]; other site 572480001164 putative CheW interface [polypeptide binding]; other site 572480001165 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 572480001166 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 572480001167 putative active site [active] 572480001168 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 572480001169 Response regulator receiver domain; Region: Response_reg; pfam00072 572480001170 active site 572480001171 phosphorylation site [posttranslational modification] 572480001172 intermolecular recognition site; other site 572480001173 dimerization interface [polypeptide binding]; other site 572480001174 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 572480001175 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 572480001176 PAS fold; Region: PAS_3; pfam08447 572480001177 putative active site [active] 572480001178 heme pocket [chemical binding]; other site 572480001179 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 572480001180 PAS fold; Region: PAS_3; pfam08447 572480001181 putative active site [active] 572480001182 heme pocket [chemical binding]; other site 572480001183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001184 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 572480001185 dimer interface [polypeptide binding]; other site 572480001186 phosphorylation site [posttranslational modification] 572480001187 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 572480001188 ATP binding site [chemical binding]; other site 572480001189 Mg2+ binding site [ion binding]; other site 572480001190 G-X-G motif; other site 572480001191 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl17317 572480001192 flagellin; Provisional; Region: PRK12802 572480001193 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572480001194 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 572480001195 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 572480001196 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 572480001197 active site 572480001198 PAS domain; Region: PAS_9; pfam13426 572480001199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001200 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; cl00080 572480001201 dimer interface [polypeptide binding]; other site 572480001202 phosphorylation site [posttranslational modification] 572480001203 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 572480001204 ATP binding site [chemical binding]; other site 572480001205 Mg2+ binding site [ion binding]; other site 572480001206 G-X-G motif; other site 572480001207 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 572480001208 iron-sulfur cluster [ion binding]; other site 572480001209 [2Fe-2S] cluster binding site [ion binding]; other site 572480001210 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 572480001211 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480001212 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572480001213 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572480001214 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 572480001215 active site 572480001216 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 572480001217 Catalytic domain of Protein Kinases; Region: PKc; cd00180 572480001218 active site 572480001219 ATP binding site [chemical binding]; other site 572480001220 substrate binding site [chemical binding]; other site 572480001221 activation loop (A-loop); other site 572480001222 cyanate hydratase; Validated; Region: PRK02866 572480001223 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 572480001224 oligomer interface [polypeptide binding]; other site 572480001225 active site 572480001226 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 572480001227 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 572480001228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001229 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 572480001230 ATP binding site [chemical binding]; other site 572480001231 Mg2+ binding site [ion binding]; other site 572480001232 G-X-G motif; other site 572480001233 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001234 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 572480001235 active site 572480001236 phosphorylation site [posttranslational modification] 572480001237 intermolecular recognition site; other site 572480001238 dimerization interface [polypeptide binding]; other site 572480001239 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; cl17355 572480001240 DNA binding site [nucleotide binding] 572480001241 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 572480001242 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 572480001243 [4Fe-4S] binding site [ion binding]; other site 572480001244 molybdopterin cofactor binding site; other site 572480001245 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 572480001246 molybdopterin cofactor binding site; other site 572480001247 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572480001248 NMT1-like family; Region: NMT1_2; pfam13379 572480001249 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572480001250 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 572480001251 dimer interface [polypeptide binding]; other site 572480001252 conserved gate region; other site 572480001253 putative PBP binding loops; other site 572480001254 ABC-ATPase subunit interface; other site 572480001255 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572480001256 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572480001257 Walker A/P-loop; other site 572480001258 ATP binding site [chemical binding]; other site 572480001259 Q-loop/lid; other site 572480001260 ABC transporter signature motif; other site 572480001261 Walker B; other site 572480001262 D-loop; other site 572480001263 H-loop/switch region; other site 572480001264 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480001265 dimer interface [polypeptide binding]; other site 572480001266 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480001267 putative CheW interface [polypeptide binding]; other site 572480001268 PQQ-like domain; Region: PQQ_2; pfam13360 572480001269 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 572480001270 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 572480001271 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 572480001272 protein binding site [polypeptide binding]; other site 572480001273 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 572480001274 Catalytic dyad [active] 572480001275 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 572480001276 ATP binding site [chemical binding]; other site 572480001277 active site 572480001278 substrate binding site [chemical binding]; other site 572480001279 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 572480001280 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 572480001281 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 572480001282 putative active site [active] 572480001283 catalytic triad [active] 572480001284 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572480001285 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572480001286 putative acyl-acceptor binding pocket; other site 572480001287 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 572480001288 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 572480001289 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 572480001290 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 572480001291 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 572480001292 active site 572480001293 HIGH motif; other site 572480001294 KMSK motif region; other site 572480001295 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572480001296 tRNA binding surface [nucleotide binding]; other site 572480001297 anticodon binding site; other site 572480001298 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 572480001299 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 572480001300 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 572480001301 active site 572480001302 (T/H)XGH motif; other site 572480001303 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 572480001304 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 572480001305 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 572480001306 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 572480001307 Phosphoglycerate kinase; Region: PGK; pfam00162 572480001308 substrate binding site [chemical binding]; other site 572480001309 hinge regions; other site 572480001310 ADP binding site [chemical binding]; other site 572480001311 catalytic site [active] 572480001312 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 572480001313 triosephosphate isomerase; Provisional; Region: PRK14565 572480001314 substrate binding site [chemical binding]; other site 572480001315 dimer interface [polypeptide binding]; other site 572480001316 catalytic triad [active] 572480001317 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 572480001318 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 572480001319 NAD binding site [chemical binding]; other site 572480001320 homotetramer interface [polypeptide binding]; other site 572480001321 homodimer interface [polypeptide binding]; other site 572480001322 substrate binding site [chemical binding]; other site 572480001323 active site 572480001324 diaminopimelate decarboxylase; Region: lysA; TIGR01048 572480001325 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 572480001326 active site 572480001327 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480001328 substrate binding site [chemical binding]; other site 572480001329 catalytic residues [active] 572480001330 dimer interface [polypeptide binding]; other site 572480001331 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 572480001332 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 572480001333 active site 572480001334 motif I; other site 572480001335 motif II; other site 572480001336 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 572480001337 Chorismate mutase type II; Region: CM_2; cl00693 572480001338 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 572480001339 Prephenate dehydratase; Region: PDT; pfam00800 572480001340 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 572480001341 putative L-Phe binding site [chemical binding]; other site 572480001342 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 572480001343 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 572480001344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480001345 homodimer interface [polypeptide binding]; other site 572480001346 catalytic residue [active] 572480001347 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 572480001348 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 572480001349 TPP-binding site; other site 572480001350 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 572480001351 PYR/PP interface [polypeptide binding]; other site 572480001352 dimer interface [polypeptide binding]; other site 572480001353 TPP binding site [chemical binding]; other site 572480001354 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572480001355 Maf-like protein; Reviewed; Region: PRK04056 572480001356 Maf-like protein; Region: Maf; pfam02545 572480001357 putative active site [active] 572480001358 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 572480001359 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 572480001360 putative substrate translocation pore; other site 572480001361 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480001362 EamA-like transporter family; Region: EamA; pfam00892 572480001363 EamA-like transporter family; Region: EamA; pfam00892 572480001364 Predicted permeases [General function prediction only]; Region: COG0679 572480001365 NlpC/P60 family; Region: NLPC_P60; pfam00877 572480001366 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 572480001367 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 572480001368 motif 1; other site 572480001369 active site 572480001370 motif 2; other site 572480001371 motif 3; other site 572480001372 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 572480001373 DHHA1 domain; Region: DHHA1; pfam02272 572480001374 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 572480001375 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480001376 catalytic residues [active] 572480001377 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572480001378 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572480001379 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572480001380 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 572480001381 transmembrane helices; other site 572480001382 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 572480001383 PAS domain; Region: PAS; smart00091 572480001384 PAS domain; Region: PAS_9; pfam13426 572480001385 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 572480001386 ATP binding site [chemical binding]; other site 572480001387 Mg2+ binding site [ion binding]; other site 572480001388 G-X-G motif; other site 572480001389 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001390 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 572480001391 active site 572480001392 phosphorylation site [posttranslational modification] 572480001393 intermolecular recognition site; other site 572480001394 dimerization interface [polypeptide binding]; other site 572480001395 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 572480001396 DNA binding site [nucleotide binding] 572480001397 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 572480001398 Fumarase C-terminus; Region: Fumerase_C; pfam05683 572480001399 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 572480001400 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 572480001401 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 572480001402 L-aspartate oxidase; Provisional; Region: PRK06175 572480001403 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572480001404 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 572480001405 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 572480001406 Iron-sulfur protein interface; other site 572480001407 proximal heme binding site [chemical binding]; other site 572480001408 distal heme binding site [chemical binding]; other site 572480001409 dimer interface [polypeptide binding]; other site 572480001410 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572480001411 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572480001412 dihydrodipicolinate reductase; Provisional; Region: PRK00048 572480001413 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 572480001414 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 572480001415 amidophosphoribosyltransferase; Provisional; Region: PRK08525 572480001416 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 572480001417 active site 572480001418 tetramer interface [polypeptide binding]; other site 572480001419 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480001420 active site 572480001421 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 572480001422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572480001423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572480001424 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 572480001425 dimerization interface [polypeptide binding]; other site 572480001426 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 572480001427 Family description; Region: UvrD_C_2; pfam13538 572480001428 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 572480001429 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 572480001430 RNA binding site [nucleotide binding]; other site 572480001431 active site 572480001432 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 572480001433 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 572480001434 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 572480001435 SmpB-tmRNA interface; other site 572480001436 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 572480001437 Low-spin heme binding site [chemical binding]; other site 572480001438 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 572480001439 D-pathway; other site 572480001440 Putative water exit pathway; other site 572480001441 Binuclear center (active site) [active] 572480001442 K-pathway; other site 572480001443 Putative proton exit pathway; other site 572480001444 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 572480001445 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 572480001446 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 572480001447 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 572480001448 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 572480001449 Cytochrome c; Region: Cytochrom_C; cl11414 572480001450 Cytochrome c; Region: Cytochrom_C; pfam00034 572480001451 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 572480001452 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 572480001453 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]; Region: MCM2; COG1241 572480001454 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572480001455 peptide chain release factor 2; Validated; Region: prfB; PRK00578 572480001456 This domain is found in peptide chain release factors; Region: PCRF; smart00937 572480001457 RF-1 domain; Region: RF-1; pfam00472 572480001458 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 572480001459 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 572480001460 Dihydroneopterin aldolase; Region: FolB; pfam02152 572480001461 active site 572480001462 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 572480001463 quinolinate synthetase; Provisional; Region: PRK09375 572480001464 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 572480001465 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 572480001466 dimerization interface [polypeptide binding]; other site 572480001467 active site 572480001468 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572480001469 DHH family; Region: DHH; pfam01368 572480001470 DHHA1 domain; Region: DHHA1; pfam02272 572480001471 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572480001472 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480001473 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 572480001474 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 572480001475 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 572480001476 homoserine kinase; Provisional; Region: PRK01212 572480001477 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 572480001478 Protein of unknown function (DUF448); Region: DUF448; pfam04296 572480001479 putative RNA binding cleft [nucleotide binding]; other site 572480001480 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572480001481 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572480001482 translation initiation factor IF-2; Region: IF-2; TIGR00487 572480001483 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 572480001484 G1 box; other site 572480001485 putative GEF interaction site [polypeptide binding]; other site 572480001486 GTP/Mg2+ binding site [chemical binding]; other site 572480001487 Switch I region; other site 572480001488 G2 box; other site 572480001489 G3 box; other site 572480001490 Switch II region; other site 572480001491 G4 box; other site 572480001492 G5 box; other site 572480001493 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 572480001494 Translation-initiation factor 2; Region: IF-2; pfam11987 572480001495 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 572480001496 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 572480001497 ribosome maturation protein RimP; Reviewed; Region: PRK00092 572480001498 Sm and related proteins; Region: Sm_like; cl00259 572480001499 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 572480001500 putative oligomer interface [polypeptide binding]; other site 572480001501 putative RNA binding site [nucleotide binding]; other site 572480001502 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480001503 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 572480001504 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 572480001505 catalytic motif [active] 572480001506 Zn binding site [ion binding]; other site 572480001507 RibD C-terminal domain; Region: RibD_C; cl17279 572480001508 elongation factor P; Validated; Region: PRK00529 572480001509 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 572480001510 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 572480001511 RNA binding site [nucleotide binding]; other site 572480001512 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 572480001513 RNA binding site [nucleotide binding]; other site 572480001514 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 572480001515 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 572480001516 ligand binding site [chemical binding]; other site 572480001517 NAD binding site [chemical binding]; other site 572480001518 dimerization interface [polypeptide binding]; other site 572480001519 catalytic site [active] 572480001520 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 572480001521 putative L-serine binding site [chemical binding]; other site 572480001522 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 572480001523 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 572480001524 RNA binding site [nucleotide binding]; other site 572480001525 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 572480001526 RNA binding site [nucleotide binding]; other site 572480001527 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 572480001528 RNA binding site [nucleotide binding]; other site 572480001529 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 572480001530 RNA binding site [nucleotide binding]; other site 572480001531 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 572480001532 RNA binding site [nucleotide binding]; other site 572480001533 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 572480001534 LytB protein; Region: LYTB; pfam02401 572480001535 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 572480001536 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 572480001537 hinge; other site 572480001538 active site 572480001539 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 572480001540 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 572480001541 putative tRNA-binding site [nucleotide binding]; other site 572480001542 tRNA synthetase B5 domain; Region: B5; pfam03484 572480001543 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 572480001544 dimer interface [polypeptide binding]; other site 572480001545 motif 1; other site 572480001546 motif 3; other site 572480001547 motif 2; other site 572480001548 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 572480001549 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 572480001550 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 572480001551 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 572480001552 dimer interface [polypeptide binding]; other site 572480001553 motif 1; other site 572480001554 active site 572480001555 motif 2; other site 572480001556 motif 3; other site 572480001557 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 572480001558 nucleotide binding site/active site [active] 572480001559 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 572480001560 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 572480001561 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 572480001562 dimer interface [polypeptide binding]; other site 572480001563 active site 572480001564 acyl carrier protein; Provisional; Region: acpP; PRK00982 572480001565 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 572480001566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480001567 NAD(P) binding site [chemical binding]; other site 572480001568 active site 572480001569 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 572480001570 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 572480001571 FeS/SAM binding site; other site 572480001572 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 572480001573 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 572480001574 Ligand Binding Site [chemical binding]; other site 572480001575 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 572480001576 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 572480001577 dimer interface [polypeptide binding]; other site 572480001578 putative functional site; other site 572480001579 putative MPT binding site; other site 572480001580 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 572480001581 RNA methyltransferase, RsmE family; Region: TIGR00046 572480001582 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001583 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 572480001584 active site 572480001585 phosphorylation site [posttranslational modification] 572480001586 intermolecular recognition site; other site 572480001587 dimerization interface [polypeptide binding]; other site 572480001588 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480001589 DNA binding site [nucleotide binding] 572480001590 Cytochrome c; Region: Cytochrom_C; pfam00034 572480001591 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 572480001592 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 572480001593 Cytochrome c; Region: Cytochrom_C; pfam00034 572480001594 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 572480001595 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 572480001596 intrachain domain interface; other site 572480001597 interchain domain interface [polypeptide binding]; other site 572480001598 heme bH binding site [chemical binding]; other site 572480001599 Qi binding site; other site 572480001600 heme bL binding site [chemical binding]; other site 572480001601 Qo binding site; other site 572480001602 interchain domain interface [polypeptide binding]; other site 572480001603 intrachain domain interface; other site 572480001604 Qi binding site; other site 572480001605 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 572480001606 Qo binding site; other site 572480001607 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 572480001608 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 572480001609 iron-sulfur cluster [ion binding]; other site 572480001610 [2Fe-2S] cluster binding site [ion binding]; other site 572480001611 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 572480001612 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 572480001613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480001614 catalytic residue [active] 572480001615 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 572480001616 feedback inhibition sensing region; other site 572480001617 homohexameric interface [polypeptide binding]; other site 572480001618 nucleotide binding site [chemical binding]; other site 572480001619 N-acetyl-L-glutamate binding site [chemical binding]; other site 572480001620 putative recombination protein RecB; Provisional; Region: PRK13909 572480001621 Part of AAA domain; Region: AAA_19; pfam13245 572480001622 Family description; Region: UvrD_C_2; pfam13538 572480001623 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 572480001624 thiamine phosphate binding site [chemical binding]; other site 572480001625 active site 572480001626 pyrophosphate binding site [ion binding]; other site 572480001627 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 572480001628 threonine dehydratase; Provisional; Region: PRK08526 572480001629 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 572480001630 tetramer interface [polypeptide binding]; other site 572480001631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480001632 catalytic residue [active] 572480001633 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 572480001634 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 572480001635 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 572480001636 THF binding site; other site 572480001637 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 572480001638 substrate binding site [chemical binding]; other site 572480001639 THF binding site; other site 572480001640 zinc-binding site [ion binding]; other site 572480001641 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 572480001642 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 572480001643 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 572480001644 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 572480001645 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572480001646 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 572480001647 active site 572480001648 nucleophile elbow; other site 572480001649 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572480001650 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 572480001651 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 572480001652 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 572480001653 ABC-ATPase subunit interface; other site 572480001654 dimer interface [polypeptide binding]; other site 572480001655 putative PBP binding regions; other site 572480001656 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 572480001657 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572480001658 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 572480001659 classical (c) SDRs; Region: SDR_c; cd05233 572480001660 NAD(P) binding site [chemical binding]; other site 572480001661 active site 572480001662 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572480001663 MgtE intracellular N domain; Region: MgtE_N; pfam03448 572480001664 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 572480001665 Divalent cation transporter; Region: MgtE; pfam01769 572480001666 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 572480001667 Uncharacterized conserved protein [Function unknown]; Region: COG2966 572480001668 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 572480001669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480001670 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480001671 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480001672 N-terminal plug; other site 572480001673 ligand-binding site [chemical binding]; other site 572480001674 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 572480001675 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 572480001676 putative metal binding site [ion binding]; other site 572480001677 putative homodimer interface [polypeptide binding]; other site 572480001678 putative homotetramer interface [polypeptide binding]; other site 572480001679 putative homodimer-homodimer interface [polypeptide binding]; other site 572480001680 putative allosteric switch controlling residues; other site 572480001681 Helix-turn-helix domain; Region: HTH_18; pfam12833 572480001682 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480001683 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480001684 N-terminal plug; other site 572480001685 ligand-binding site [chemical binding]; other site 572480001686 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480001687 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572480001688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480001689 Walker A/P-loop; other site 572480001690 ATP binding site [chemical binding]; other site 572480001691 Q-loop/lid; other site 572480001692 ABC transporter signature motif; other site 572480001693 Walker B; other site 572480001694 D-loop; other site 572480001695 H-loop/switch region; other site 572480001696 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572480001697 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480001698 Walker A/P-loop; other site 572480001699 ATP binding site [chemical binding]; other site 572480001700 Q-loop/lid; other site 572480001701 ABC transporter signature motif; other site 572480001702 Walker B; other site 572480001703 D-loop; other site 572480001704 H-loop/switch region; other site 572480001705 muropeptide transporter; Validated; Region: ampG; cl17669 572480001706 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 572480001707 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480001708 putative substrate translocation pore; other site 572480001709 Predicted membrane protein [Function unknown]; Region: COG1971 572480001710 Domain of unknown function DUF; Region: DUF204; pfam02659 572480001711 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 572480001712 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480001713 substrate binding pocket [chemical binding]; other site 572480001714 membrane-bound complex binding site; other site 572480001715 hinge residues; other site 572480001716 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 572480001717 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572480001718 dimer interface [polypeptide binding]; other site 572480001719 conserved gate region; other site 572480001720 putative PBP binding loops; other site 572480001721 ABC-ATPase subunit interface; other site 572480001722 pantothenate kinase; Reviewed; Region: PRK13333 572480001723 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 572480001724 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 572480001725 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 572480001726 Methyltransferase domain; Region: Methyltransf_11; pfam08241 572480001727 S-adenosylmethionine binding site [chemical binding]; other site 572480001728 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 572480001729 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 572480001730 active site 572480001731 HIGH motif; other site 572480001732 dimer interface [polypeptide binding]; other site 572480001733 KMSKS motif; other site 572480001734 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 572480001735 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480001736 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480001737 N-terminal plug; other site 572480001738 ligand-binding site [chemical binding]; other site 572480001739 Helix-turn-helix domain; Region: HTH_18; pfam12833 572480001740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480001741 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001742 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 572480001743 active site 572480001744 phosphorylation site [posttranslational modification] 572480001745 intermolecular recognition site; other site 572480001746 dimerization interface [polypeptide binding]; other site 572480001747 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 572480001748 DNA binding site [nucleotide binding] 572480001749 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480001750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001751 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; cl00080 572480001752 dimer interface [polypeptide binding]; other site 572480001753 phosphorylation site [posttranslational modification] 572480001754 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 572480001755 ATP binding site [chemical binding]; other site 572480001756 Mg2+ binding site [ion binding]; other site 572480001757 G-X-G motif; other site 572480001758 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 572480001759 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572480001760 G1 box; other site 572480001761 GTP/Mg2+ binding site [chemical binding]; other site 572480001762 Switch I region; other site 572480001763 G2 box; other site 572480001764 G3 box; other site 572480001765 Switch II region; other site 572480001766 G4 box; other site 572480001767 G5 box; other site 572480001768 Nucleoside recognition; Region: Gate; pfam07670 572480001769 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 572480001770 Nucleoside recognition; Region: Gate; pfam07670 572480001771 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572480001772 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 572480001773 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 572480001774 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572480001775 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572480001776 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572480001777 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 572480001778 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 572480001779 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 572480001780 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 572480001781 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480001782 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480001783 N-terminal plug; other site 572480001784 ligand-binding site [chemical binding]; other site 572480001785 seryl-tRNA synthetase; Provisional; Region: PRK05431 572480001786 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 572480001787 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 572480001788 dimer interface [polypeptide binding]; other site 572480001789 active site 572480001790 motif 1; other site 572480001791 motif 2; other site 572480001792 motif 3; other site 572480001793 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 572480001794 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 572480001795 non-specific DNA binding site [nucleotide binding]; other site 572480001796 salt bridge; other site 572480001797 sequence-specific DNA binding site [nucleotide binding]; other site 572480001798 Cupin domain; Region: Cupin_2; pfam07883 572480001799 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 572480001800 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572480001801 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480001802 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 572480001803 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 572480001804 hexamer interface [polypeptide binding]; other site 572480001805 ligand binding site [chemical binding]; other site 572480001806 putative active site [active] 572480001807 NAD(P) binding site [chemical binding]; other site 572480001808 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480001809 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480001810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480001811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480001812 dimer interface [polypeptide binding]; other site 572480001813 putative CheW interface [polypeptide binding]; other site 572480001814 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480001815 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572480001816 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572480001817 Walker A/P-loop; other site 572480001818 ATP binding site [chemical binding]; other site 572480001819 Q-loop/lid; other site 572480001820 ABC transporter signature motif; other site 572480001821 Walker B; other site 572480001822 D-loop; other site 572480001823 H-loop/switch region; other site 572480001824 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 572480001825 dimer interface [polypeptide binding]; other site 572480001826 conserved gate region; other site 572480001827 putative PBP binding loops; other site 572480001828 ABC-ATPase subunit interface; other site 572480001829 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 572480001830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 572480001831 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 572480001832 dimer interface [polypeptide binding]; other site 572480001833 conserved gate region; other site 572480001834 putative PBP binding loops; other site 572480001835 ABC-ATPase subunit interface; other site 572480001836 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 572480001837 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 572480001838 substrate binding pocket [chemical binding]; other site 572480001839 membrane-bound complex binding site; other site 572480001840 hinge residues; other site 572480001841 NapD protein; Region: NapD; pfam03927 572480001842 FOG: WD40 repeat [General function prediction only]; Region: COG2319 572480001843 ferredoxin-type protein NapF; Region: napF; TIGR00402 572480001844 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 572480001845 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572480001846 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 572480001847 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 572480001848 4Fe-4S binding domain; Region: Fer4_5; pfam12801 572480001849 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572480001850 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 572480001851 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 572480001852 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 572480001853 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480001854 molybdopterin cofactor binding site; other site 572480001855 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480001856 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480001857 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 572480001858 molybdopterin cofactor binding site; other site 572480001859 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 572480001860 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572480001861 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572480001862 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 572480001863 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 572480001864 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 572480001865 active site 572480001866 SAM binding site [chemical binding]; other site 572480001867 homodimer interface [polypeptide binding]; other site 572480001868 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 572480001869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572480001870 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 572480001871 ligand binding site [chemical binding]; other site 572480001872 flexible hinge region; other site 572480001873 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 572480001874 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 572480001875 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 572480001876 FeS/SAM binding site; other site 572480001877 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 572480001878 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572480001879 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 572480001880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480001881 Walker A/P-loop; other site 572480001882 Walker A/P-loop; other site 572480001883 ATP binding site [chemical binding]; other site 572480001884 ATP binding site [chemical binding]; other site 572480001885 Q-loop/lid; other site 572480001886 ABC transporter signature motif; other site 572480001887 Walker B; other site 572480001888 D-loop; other site 572480001889 H-loop/switch region; other site 572480001890 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 572480001891 16S/18S rRNA binding site [nucleotide binding]; other site 572480001892 S13e-L30e interaction site [polypeptide binding]; other site 572480001893 25S rRNA binding site [nucleotide binding]; other site 572480001894 Rrf2 family protein; Region: rrf2_super; TIGR00738 572480001895 Transcriptional regulator; Region: Rrf2; pfam02082 572480001896 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 572480001897 DHHA1 domain; Region: DHHA1; pfam02272 572480001898 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572480001899 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 572480001900 active site 572480001901 phosphorylation site [posttranslational modification] 572480001902 intermolecular recognition site; other site 572480001903 dimerization interface [polypeptide binding]; other site 572480001904 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 572480001905 PAS domain; Region: PAS_9; pfam13426 572480001906 putative active site [active] 572480001907 heme pocket [chemical binding]; other site 572480001908 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 572480001909 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 572480001910 murein transglycosylase C; Provisional; Region: mltC; PRK11671 572480001911 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 572480001912 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572480001913 catalytic residue [active] 572480001914 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480001915 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480001916 dimer interface [polypeptide binding]; other site 572480001917 putative CheW interface [polypeptide binding]; other site 572480001918 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 572480001919 dimerization interface [polypeptide binding]; other site 572480001920 putative DNA binding site [nucleotide binding]; other site 572480001921 putative Zn2+ binding site [ion binding]; other site 572480001922 arsenical pump membrane protein; Provisional; Region: PRK15445 572480001923 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 572480001924 transmembrane helices; other site 572480001925 Low molecular weight phosphatase family; Region: LMWPc; cl00105 572480001926 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 572480001927 active site 572480001928 Predicted permeases [General function prediction only]; Region: COG0701 572480001929 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 572480001930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001931 HAMP domain; Region: HAMP; pfam00672 572480001932 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 572480001933 dimer interface [polypeptide binding]; other site 572480001934 phosphorylation site [posttranslational modification] 572480001935 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 572480001936 ATP binding site [chemical binding]; other site 572480001937 Mg2+ binding site [ion binding]; other site 572480001938 G-X-G motif; other site 572480001939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480001940 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 572480001941 active site 572480001942 phosphorylation site [posttranslational modification] 572480001943 intermolecular recognition site; other site 572480001944 dimerization interface [polypeptide binding]; other site 572480001945 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 572480001946 DNA binding site [nucleotide binding] 572480001947 SurA N-terminal domain; Region: SurA_N_3; cl07813 572480001948 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 572480001949 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 572480001950 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 572480001951 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 572480001952 active site 572480001953 intersubunit interface [polypeptide binding]; other site 572480001954 zinc binding site [ion binding]; other site 572480001955 Na+ binding site [ion binding]; other site 572480001956 integrase; Provisional; Region: PRK09692 572480001957 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 572480001958 active site 572480001959 Int/Topo IB signature motif; other site 572480001960 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 572480001961 DNA binding residues [nucleotide binding] 572480001962 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 572480001963 DNA-binding interface [nucleotide binding]; DNA binding site 572480001964 Predicted transcriptional regulators [Transcription]; Region: COG1733 572480001965 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 572480001966 dimerization interface [polypeptide binding]; other site 572480001967 putative DNA binding site [nucleotide binding]; other site 572480001968 putative Zn2+ binding site [ion binding]; other site 572480001969 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480001970 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480001971 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480001972 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 572480001973 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572480001974 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 572480001975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480001976 metal binding site [ion binding]; metal-binding site 572480001977 active site 572480001978 I-site; other site 572480001979 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480001980 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572480001981 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572480001982 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 572480001983 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 572480001984 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 572480001985 NMT1/THI5 like; Region: NMT1; pfam09084 572480001986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480001987 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 572480001988 substrate binding pocket [chemical binding]; other site 572480001989 membrane-bound complex binding site; other site 572480001990 hinge residues; other site 572480001991 PAS fold; Region: PAS; pfam00989 572480001992 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 572480001993 putative active site [active] 572480001994 heme pocket [chemical binding]; other site 572480001995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480001996 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 572480001997 dimer interface [polypeptide binding]; other site 572480001998 phosphorylation site [posttranslational modification] 572480001999 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 572480002000 ATP binding site [chemical binding]; other site 572480002001 Mg2+ binding site [ion binding]; other site 572480002002 G-X-G motif; other site 572480002003 shikimate kinase; Reviewed; Region: aroK; PRK00131 572480002004 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 572480002005 ADP binding site [chemical binding]; other site 572480002006 magnesium binding site [ion binding]; other site 572480002007 putative shikimate binding site; other site 572480002008 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 572480002009 histidinol dehydrogenase; Region: hisD; TIGR00069 572480002010 NAD binding site [chemical binding]; other site 572480002011 dimerization interface [polypeptide binding]; other site 572480002012 product binding site; other site 572480002013 substrate binding site [chemical binding]; other site 572480002014 zinc binding site [ion binding]; other site 572480002015 catalytic residues [active] 572480002016 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 572480002017 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 572480002018 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 572480002019 substrate binding pocket [chemical binding]; other site 572480002020 chain length determination region; other site 572480002021 substrate-Mg2+ binding site; other site 572480002022 catalytic residues [active] 572480002023 aspartate-rich region 1; other site 572480002024 active site lid residues [active] 572480002025 aspartate-rich region 2; other site 572480002026 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 572480002027 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 572480002028 tRNA; other site 572480002029 putative tRNA binding site [nucleotide binding]; other site 572480002030 putative NADP binding site [chemical binding]; other site 572480002031 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 572480002032 prolyl-tRNA synthetase; Provisional; Region: PRK09194 572480002033 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 572480002034 dimer interface [polypeptide binding]; other site 572480002035 motif 1; other site 572480002036 active site 572480002037 motif 2; other site 572480002038 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 572480002039 putative deacylase active site [active] 572480002040 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 572480002041 active site 572480002042 motif 3; other site 572480002043 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 572480002044 anticodon binding site; other site 572480002045 Conserved TM helix; Region: TM_helix; pfam05552 572480002046 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572480002047 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 572480002048 active site 572480002049 NTP binding site [chemical binding]; other site 572480002050 metal binding triad [ion binding]; metal-binding site 572480002051 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 572480002052 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480002053 Zn2+ binding site [ion binding]; other site 572480002054 Mg2+ binding site [ion binding]; other site 572480002055 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 572480002056 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 572480002057 active site 572480002058 catalytic triad [active] 572480002059 dimer interface [polypeptide binding]; other site 572480002060 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 572480002061 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 572480002062 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 572480002063 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 572480002064 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 572480002065 Protein export membrane protein; Region: SecD_SecF; pfam02355 572480002066 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 572480002067 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 572480002068 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572480002069 HIGH motif; other site 572480002070 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572480002071 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572480002072 active site 572480002073 KMSKS motif; other site 572480002074 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 572480002075 tRNA binding surface [nucleotide binding]; other site 572480002076 Lipopolysaccharide-assembly; Region: LptE; pfam04390 572480002077 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 572480002078 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 572480002079 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572480002080 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480002081 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 572480002082 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 572480002083 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572480002084 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 572480002085 ATP binding site [chemical binding]; other site 572480002086 putative Mg++ binding site [ion binding]; other site 572480002087 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 572480002088 nucleotide binding region [chemical binding]; other site 572480002089 ATP-binding site [chemical binding]; other site 572480002090 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572480002091 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572480002092 TrkA-N domain; Region: TrkA_N; pfam02254 572480002093 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 572480002094 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572480002095 putative acyl-acceptor binding pocket; other site 572480002096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 572480002097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 572480002098 Cache domain; Region: Cache_1; pfam02743 572480002099 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572480002100 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 572480002101 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480002102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002103 dimer interface [polypeptide binding]; other site 572480002104 putative CheW interface [polypeptide binding]; other site 572480002105 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 572480002106 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 572480002107 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 572480002108 ATP binding site [chemical binding]; other site 572480002109 putative Mg++ binding site [ion binding]; other site 572480002110 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 572480002111 nucleotide binding region [chemical binding]; other site 572480002112 ATP-binding site [chemical binding]; other site 572480002113 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 572480002114 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480002115 PAS domain S-box; Region: sensory_box; TIGR00229 572480002116 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 572480002117 putative active site [active] 572480002118 heme pocket [chemical binding]; other site 572480002119 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480002120 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002121 metal binding site [ion binding]; metal-binding site 572480002122 active site 572480002123 I-site; other site 572480002124 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 572480002125 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 572480002126 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 572480002127 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 572480002128 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 572480002129 Uncharacterized conserved protein [Function unknown]; Region: COG1433 572480002130 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 572480002131 Fumarase C-terminus; Region: Fumerase_C; pfam05683 572480002132 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480002133 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 572480002134 active site 572480002135 phosphorylation site [posttranslational modification] 572480002136 intermolecular recognition site; other site 572480002137 dimerization interface [polypeptide binding]; other site 572480002138 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 572480002139 DNA binding site [nucleotide binding] 572480002140 MatE; Region: MatE; pfam01554 572480002141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480002142 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 572480002143 dimer interface [polypeptide binding]; other site 572480002144 phosphorylation site [posttranslational modification] 572480002145 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 572480002146 ATP binding site [chemical binding]; other site 572480002147 Mg2+ binding site [ion binding]; other site 572480002148 G-X-G motif; other site 572480002149 HI0933-like protein; Region: HI0933_like; pfam03486 572480002150 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572480002151 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 572480002152 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 572480002153 putative PBP binding regions; other site 572480002154 ABC-ATPase subunit interface; other site 572480002155 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 572480002156 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 572480002157 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 572480002158 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 572480002159 intersubunit interface [polypeptide binding]; other site 572480002160 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 572480002161 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480002162 putative active site [active] 572480002163 metal binding site [ion binding]; metal-binding site 572480002164 homodimer binding site [polypeptide binding]; other site 572480002165 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 572480002166 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 572480002167 minor groove reading motif; other site 572480002168 helix-hairpin-helix signature motif; other site 572480002169 active site 572480002170 ATPase MipZ; Region: MipZ; pfam09140 572480002171 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 572480002172 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 572480002173 S-adenosylmethionine binding site [chemical binding]; other site 572480002174 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 572480002175 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 572480002176 generic binding surface II; other site 572480002177 generic binding surface I; other site 572480002178 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 572480002179 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 572480002180 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 572480002181 Response regulator receiver domain; Region: Response_reg; pfam00072 572480002182 active site 572480002183 phosphorylation site [posttranslational modification] 572480002184 intermolecular recognition site; other site 572480002185 dimerization interface [polypeptide binding]; other site 572480002186 Response regulator receiver domain; Region: Response_reg; pfam00072 572480002187 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 572480002188 active site 572480002189 phosphorylation site [posttranslational modification] 572480002190 intermolecular recognition site; other site 572480002191 dimerization interface [polypeptide binding]; other site 572480002192 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 572480002193 PAS domain; Region: PAS_9; pfam13426 572480002194 putative active site [active] 572480002195 heme pocket [chemical binding]; other site 572480002196 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 572480002197 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 572480002198 active site 572480002199 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 572480002200 [2Fe-2S] cluster binding site [ion binding]; other site 572480002201 dimer interface [polypeptide binding]; other site 572480002202 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 572480002203 tetramerization interface [polypeptide binding]; other site 572480002204 active site 572480002205 hypothetical protein; Provisional; Region: PRK03762 572480002206 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 572480002207 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 572480002208 substrate binding pocket [chemical binding]; other site 572480002209 chain length determination region; other site 572480002210 substrate-Mg2+ binding site; other site 572480002211 catalytic residues [active] 572480002212 aspartate-rich region 1; other site 572480002213 active site lid residues [active] 572480002214 aspartate-rich region 2; other site 572480002215 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 572480002216 oligomerisation interface [polypeptide binding]; other site 572480002217 mobile loop; other site 572480002218 roof hairpin; other site 572480002219 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 572480002220 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 572480002221 ring oligomerisation interface [polypeptide binding]; other site 572480002222 ATP/Mg binding site [chemical binding]; other site 572480002223 stacking interactions; other site 572480002224 hinge regions; other site 572480002225 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 572480002226 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 572480002227 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 572480002228 glutaminase active site [active] 572480002229 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 572480002230 dimer interface [polypeptide binding]; other site 572480002231 active site 572480002232 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 572480002233 dimer interface [polypeptide binding]; other site 572480002234 active site 572480002235 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 572480002236 S-adenosylmethionine synthetase; Validated; Region: PRK05250 572480002237 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 572480002238 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 572480002239 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 572480002240 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 572480002241 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 572480002242 thiamine phosphate binding site [chemical binding]; other site 572480002243 active site 572480002244 pyrophosphate binding site [ion binding]; other site 572480002245 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 572480002246 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 572480002247 GlpM protein; Region: GlpM; cl01212 572480002248 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 572480002249 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 572480002250 FMN binding site [chemical binding]; other site 572480002251 active site 572480002252 catalytic residues [active] 572480002253 substrate binding site [chemical binding]; other site 572480002254 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 572480002255 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 572480002256 S-adenosylmethionine binding site [chemical binding]; other site 572480002257 FtsH Extracellular; Region: FtsH_ext; pfam06480 572480002258 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 572480002259 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 572480002260 Walker A motif; other site 572480002261 ATP binding site [chemical binding]; other site 572480002262 Walker B motif; other site 572480002263 arginine finger; other site 572480002264 Peptidase family M41; Region: Peptidase_M41; pfam01434 572480002265 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 572480002266 2-isopropylmalate synthase; Validated; Region: PRK00915 572480002267 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 572480002268 active site 572480002269 catalytic residues [active] 572480002270 metal binding site [ion binding]; metal-binding site 572480002271 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 572480002272 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 572480002273 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 572480002274 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572480002275 Haem-binding domain; Region: Haem_bd; pfam14376 572480002276 MutS domain I; Region: MutS_I; pfam01624 572480002277 MutS domain III; Region: MutS_III; pfam05192 572480002278 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 572480002279 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 572480002280 Walker A/P-loop; other site 572480002281 ATP binding site [chemical binding]; other site 572480002282 Q-loop/lid; other site 572480002283 ABC transporter signature motif; other site 572480002284 Walker B; other site 572480002285 D-loop; other site 572480002286 H-loop/switch region; other site 572480002287 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 572480002288 active site 572480002289 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 572480002290 ethanolamine permease; Region: 2A0305; TIGR00908 572480002291 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 572480002292 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 572480002293 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 572480002294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480002295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002296 metal binding site [ion binding]; metal-binding site 572480002297 active site 572480002298 I-site; other site 572480002299 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 572480002300 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 572480002301 active site 572480002302 phosphorylation site [posttranslational modification] 572480002303 intermolecular recognition site; other site 572480002304 dimerization interface [polypeptide binding]; other site 572480002305 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480002306 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 572480002307 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 572480002308 catalytic residues [active] 572480002309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480002310 TIGR01777 family protein; Region: yfcH 572480002311 NAD(P) binding site [chemical binding]; other site 572480002312 active site 572480002313 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 572480002314 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 572480002315 putative active site [active] 572480002316 oxyanion strand; other site 572480002317 catalytic triad [active] 572480002318 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480002319 active site 572480002320 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480002321 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480002322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002323 dimer interface [polypeptide binding]; other site 572480002324 putative CheW interface [polypeptide binding]; other site 572480002325 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572480002326 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572480002327 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572480002328 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 572480002329 ligand binding site [chemical binding]; other site 572480002330 flexible hinge region; other site 572480002331 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 572480002332 putative switch regulator; other site 572480002333 non-specific DNA interactions [nucleotide binding]; other site 572480002334 DNA binding site [nucleotide binding] 572480002335 sequence specific DNA binding site [nucleotide binding]; other site 572480002336 putative cAMP binding site [chemical binding]; other site 572480002337 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 572480002338 4Fe-4S binding domain; Region: Fer4; cl02805 572480002339 hydrogenase 4 subunit B; Validated; Region: PRK06521 572480002340 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480002341 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 572480002342 NADH dehydrogenase; Region: NADHdh; cl00469 572480002343 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 572480002344 hydrogenase 4 subunit F; Validated; Region: PRK06458 572480002345 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480002346 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 572480002347 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 572480002348 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 572480002349 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 572480002350 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 572480002351 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 572480002352 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 572480002353 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; cl00477 572480002354 nickel binding site [ion binding]; other site 572480002355 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 572480002356 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 572480002357 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 572480002358 [4Fe-4S] binding site [ion binding]; other site 572480002359 molybdopterin cofactor binding site; other site 572480002360 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 572480002361 molybdopterin cofactor binding site; other site 572480002362 GTP-binding protein LepA; Provisional; Region: PRK05433 572480002363 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 572480002364 G1 box; other site 572480002365 putative GEF interaction site [polypeptide binding]; other site 572480002366 GTP/Mg2+ binding site [chemical binding]; other site 572480002367 Switch I region; other site 572480002368 G2 box; other site 572480002369 G3 box; other site 572480002370 Switch II region; other site 572480002371 G4 box; other site 572480002372 G5 box; other site 572480002373 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 572480002374 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 572480002375 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 572480002376 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 572480002377 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572480002378 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572480002379 ligand binding site [chemical binding]; other site 572480002380 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 572480002381 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 572480002382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480002383 active site 572480002384 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 572480002385 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 572480002386 Ligand Binding Site [chemical binding]; other site 572480002387 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 572480002388 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 572480002389 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 572480002390 catalytic center binding site [active] 572480002391 ATP binding site [chemical binding]; other site 572480002392 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 572480002393 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572480002394 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 572480002395 active site 572480002396 Dehydroquinase class II; Region: DHquinase_II; pfam01220 572480002397 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 572480002398 trimer interface [polypeptide binding]; other site 572480002399 active site 572480002400 dimer interface [polypeptide binding]; other site 572480002401 chlorohydrolase; Provisional; Region: PRK08418 572480002402 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 572480002403 active site 572480002404 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 572480002405 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 572480002406 tandem repeat interface [polypeptide binding]; other site 572480002407 oligomer interface [polypeptide binding]; other site 572480002408 active site residues [active] 572480002409 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 572480002410 propionate/acetate kinase; Provisional; Region: PRK12379 572480002411 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 572480002412 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 572480002413 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480002414 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 572480002415 propionate/acetate kinase; Provisional; Region: PRK12379 572480002416 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 572480002417 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572480002418 active site 572480002419 catalytic site [active] 572480002420 substrate binding site [chemical binding]; other site 572480002421 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 572480002422 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 572480002423 ligand binding site [chemical binding]; other site 572480002424 flexible hinge region; other site 572480002425 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 572480002426 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 572480002427 metal binding triad; other site 572480002428 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 572480002429 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 572480002430 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 572480002431 Na binding site [ion binding]; other site 572480002432 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 572480002433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480002434 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 572480002435 active site 572480002436 phosphorylation site [posttranslational modification] 572480002437 intermolecular recognition site; other site 572480002438 dimerization interface [polypeptide binding]; other site 572480002439 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480002440 DNA binding site [nucleotide binding] 572480002441 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480002442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480002443 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 572480002444 dimer interface [polypeptide binding]; other site 572480002445 phosphorylation site [posttranslational modification] 572480002446 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 572480002447 ATP binding site [chemical binding]; other site 572480002448 Mg2+ binding site [ion binding]; other site 572480002449 G-X-G motif; other site 572480002450 Competence-damaged protein; Region: CinA; pfam02464 572480002451 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 572480002452 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572480002453 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 572480002454 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480002455 active site 572480002456 HIGH motif; other site 572480002457 nucleotide binding site [chemical binding]; other site 572480002458 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572480002459 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 572480002460 active site 572480002461 KMSKS motif; other site 572480002462 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 572480002463 tRNA binding surface [nucleotide binding]; other site 572480002464 anticodon binding site; other site 572480002465 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 572480002466 NifU-like domain; Region: NifU; cl00484 572480002467 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 572480002468 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572480002469 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572480002470 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 572480002471 metal ion-dependent adhesion site (MIDAS); other site 572480002472 Protein of unknown function DUF58; Region: DUF58; pfam01882 572480002473 MoxR-like ATPases [General function prediction only]; Region: COG0714 572480002474 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 572480002475 Walker A motif; other site 572480002476 ATP binding site [chemical binding]; other site 572480002477 Walker B motif; other site 572480002478 arginine finger; other site 572480002479 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572480002480 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 572480002481 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002482 dimer interface [polypeptide binding]; other site 572480002483 putative CheW interface [polypeptide binding]; other site 572480002484 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 572480002485 rRNA interaction site [nucleotide binding]; other site 572480002486 S8 interaction site; other site 572480002487 putative laminin-1 binding site; other site 572480002488 elongation factor Ts; Provisional; Region: tsf; PRK09377 572480002489 UBA/TS-N domain; Region: UBA; pfam00627 572480002490 Elongation factor TS; Region: EF_TS; pfam00889 572480002491 Elongation factor TS; Region: EF_TS; pfam00889 572480002492 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480002493 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572480002494 Walker A/P-loop; other site 572480002495 ATP binding site [chemical binding]; other site 572480002496 Q-loop/lid; other site 572480002497 ABC transporter signature motif; other site 572480002498 Walker B; other site 572480002499 D-loop; other site 572480002500 H-loop/switch region; other site 572480002501 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 572480002502 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 572480002503 catalytic site [active] 572480002504 G-X2-G-X-G-K; other site 572480002505 Response regulator receiver domain; Region: Response_reg; pfam00072 572480002506 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 572480002507 active site 572480002508 phosphorylation site [posttranslational modification] 572480002509 intermolecular recognition site; other site 572480002510 dimerization interface [polypeptide binding]; other site 572480002511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002512 metal binding site [ion binding]; metal-binding site 572480002513 active site 572480002514 I-site; other site 572480002515 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480002516 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 572480002517 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572480002518 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 572480002519 metal-binding site [ion binding] 572480002520 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572480002521 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572480002522 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 572480002523 Cytochrome c; Region: Cytochrom_C; cl11414 572480002524 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480002525 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572480002526 Walker A/P-loop; other site 572480002527 ATP binding site [chemical binding]; other site 572480002528 Q-loop/lid; other site 572480002529 ABC transporter signature motif; other site 572480002530 Walker B; other site 572480002531 D-loop; other site 572480002532 H-loop/switch region; other site 572480002533 ferrochelatase; Reviewed; Region: hemH; PRK00035 572480002534 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 572480002535 C-terminal domain interface [polypeptide binding]; other site 572480002536 active site 572480002537 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 572480002538 active site 572480002539 N-terminal domain interface [polypeptide binding]; other site 572480002540 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 572480002541 AMMECR1; Region: AMMECR1; pfam01871 572480002542 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 572480002543 putative ligand binding pocket/active site [active] 572480002544 putative metal binding site [ion binding]; other site 572480002545 Uncharacterized conserved protein [Function unknown]; Region: COG1434 572480002546 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 572480002547 putative active site [active] 572480002548 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 572480002549 S1 domain; Region: S1_2; pfam13509 572480002550 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 572480002551 RNA binding site [nucleotide binding]; other site 572480002552 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 572480002553 dimer interface [polypeptide binding]; other site 572480002554 catalytic triad [active] 572480002555 peroxidatic and resolving cysteines [active] 572480002556 NnrS protein; Region: NnrS; cl01258 572480002557 TMAO/DMSO reductase; Reviewed; Region: PRK05363 572480002558 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 572480002559 Moco binding site; other site 572480002560 metal coordination site [ion binding]; other site 572480002561 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 572480002562 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 572480002563 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 572480002564 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 572480002565 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 572480002566 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572480002567 Part of AAA domain; Region: AAA_19; pfam13245 572480002568 Family description; Region: UvrD_C_2; pfam13538 572480002569 Cache domain; Region: Cache_2; cl07034 572480002570 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480002571 PAS domain; Region: PAS_9; pfam13426 572480002572 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 572480002573 putative active site [active] 572480002574 heme pocket [chemical binding]; other site 572480002575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480002576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002577 metal binding site [ion binding]; metal-binding site 572480002578 active site 572480002579 I-site; other site 572480002580 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480002581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480002582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002583 metal binding site [ion binding]; metal-binding site 572480002584 active site 572480002585 I-site; other site 572480002586 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 572480002587 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480002588 active site 572480002589 HIGH motif; other site 572480002590 nucleotide binding site [chemical binding]; other site 572480002591 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572480002592 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 572480002593 active site 572480002594 KMSKS motif; other site 572480002595 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 572480002596 tRNA binding surface [nucleotide binding]; other site 572480002597 anticodon binding site; other site 572480002598 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 572480002599 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 572480002600 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480002601 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480002602 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572480002603 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572480002604 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 572480002605 NIPSNAP; Region: NIPSNAP; pfam07978 572480002606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480002607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480002608 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480002609 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480002610 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480002611 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 572480002612 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572480002613 Homoserine O-succinyltransferase; Region: HTS; pfam04204 572480002614 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 572480002615 proposed active site lysine [active] 572480002616 conserved cys residue [active] 572480002617 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572480002618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002619 metal binding site [ion binding]; metal-binding site 572480002620 active site 572480002621 I-site; other site 572480002622 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480002623 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 572480002624 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 572480002625 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480002626 putative substrate translocation pore; other site 572480002627 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 572480002628 active site 572480002629 dimerization interface [polypeptide binding]; other site 572480002630 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 572480002631 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 572480002632 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 572480002633 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 572480002634 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572480002635 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 572480002636 Walker A motif; other site 572480002637 ATP binding site [chemical binding]; other site 572480002638 Walker B motif; other site 572480002639 arginine finger; other site 572480002640 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572480002641 Rhomboid family; Region: Rhomboid; pfam01694 572480002642 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 572480002643 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 572480002644 active site 572480002645 DNA binding site [nucleotide binding] 572480002646 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 572480002647 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 572480002648 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 572480002649 oligomer interface [polypeptide binding]; other site 572480002650 metal binding site [ion binding]; metal-binding site 572480002651 aspartate ring; other site 572480002652 basic sphincter; other site 572480002653 hydrophobic gate; other site 572480002654 periplasmic entrance; other site 572480002655 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 572480002656 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 572480002657 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 572480002658 metal binding site [ion binding]; metal-binding site 572480002659 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 572480002660 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 572480002661 putative active site [active] 572480002662 Zn binding site [ion binding]; other site 572480002663 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 572480002664 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480002665 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 572480002666 Repair protein; Region: Repair_PSII; cl01535 572480002667 Repair protein; Region: Repair_PSII; pfam04536 572480002668 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 572480002669 Cache domain; Region: Cache_1; pfam02743 572480002670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002671 dimer interface [polypeptide binding]; other site 572480002672 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480002673 putative CheW interface [polypeptide binding]; other site 572480002674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572480002675 MarR family; Region: MarR; pfam01047 572480002676 short chain dehydrogenase; Validated; Region: PRK08264 572480002677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480002678 NAD(P) binding site [chemical binding]; other site 572480002679 active site 572480002680 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 572480002681 PAS domain; Region: PAS_9; pfam13426 572480002682 PAS domain; Region: PAS_9; pfam13426 572480002683 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 572480002684 putative active site [active] 572480002685 heme pocket [chemical binding]; other site 572480002686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002687 metal binding site [ion binding]; metal-binding site 572480002688 active site 572480002689 I-site; other site 572480002690 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480002691 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480002692 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 572480002693 active site 572480002694 phosphorylation site [posttranslational modification] 572480002695 intermolecular recognition site; other site 572480002696 dimerization interface [polypeptide binding]; other site 572480002697 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; cl17355 572480002698 DNA binding site [nucleotide binding] 572480002699 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002700 dimer interface [polypeptide binding]; other site 572480002701 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480002702 putative CheW interface [polypeptide binding]; other site 572480002703 PAS domain; Region: PAS_9; pfam13426 572480002704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480002705 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 572480002706 ATP binding site [chemical binding]; other site 572480002707 Mg2+ binding site [ion binding]; other site 572480002708 G-X-G motif; other site 572480002709 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 572480002710 classical (c) SDRs; Region: SDR_c; cd05233 572480002711 NAD(P) binding site [chemical binding]; other site 572480002712 active site 572480002713 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572480002714 EamA-like transporter family; Region: EamA; pfam00892 572480002715 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572480002716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480002717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480002718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480002719 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 572480002720 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 572480002721 Cu(I) binding site [ion binding]; other site 572480002722 YtkA-like; Region: YtkA; pfam13115 572480002723 Protein of unknown function (DUF461); Region: DUF461; pfam04314 572480002724 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14853 572480002725 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572480002726 metal binding site 2 [ion binding]; metal-binding site 572480002727 putative DNA binding helix; other site 572480002728 metal binding site 1 [ion binding]; metal-binding site 572480002729 dimer interface [polypeptide binding]; other site 572480002730 structural Zn2+ binding site [ion binding]; other site 572480002731 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 572480002732 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 572480002733 putative metal binding residues [ion binding]; other site 572480002734 High-affinity nickel-transport protein; Region: NicO; cl00964 572480002735 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572480002736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002737 dimer interface [polypeptide binding]; other site 572480002738 putative CheW interface [polypeptide binding]; other site 572480002739 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 572480002740 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480002741 dimer interface [polypeptide binding]; other site 572480002742 putative CheW interface [polypeptide binding]; other site 572480002743 Uncharacterized conserved protein [Function unknown]; Region: COG0397 572480002744 hypothetical protein; Validated; Region: PRK00029 572480002745 YceI-like domain; Region: YceI; pfam04264 572480002746 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 572480002747 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 572480002748 putative active site [active] 572480002749 heme pocket [chemical binding]; other site 572480002750 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 572480002751 putative active site [active] 572480002752 heme pocket [chemical binding]; other site 572480002753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480002754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480002755 metal binding site [ion binding]; metal-binding site 572480002756 active site 572480002757 I-site; other site 572480002758 Predicted membrane protein [Function unknown]; Region: COG2259 572480002759 Domain of unknown function DUF59; Region: DUF59; cl00941 572480002760 Fe-S metabolism associated domain; Region: SufE; cl00951 572480002761 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572480002762 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 572480002763 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480002764 catalytic residue [active] 572480002765 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 572480002766 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 572480002767 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 572480002768 FeS assembly ATPase SufC; Region: sufC; TIGR01978 572480002769 Walker A/P-loop; other site 572480002770 ATP binding site [chemical binding]; other site 572480002771 Q-loop/lid; other site 572480002772 ABC transporter signature motif; other site 572480002773 Walker B; other site 572480002774 D-loop; other site 572480002775 H-loop/switch region; other site 572480002776 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 572480002777 putative ABC transporter; Region: ycf24; CHL00085 572480002778 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 572480002779 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 572480002780 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480002781 catalytic residue [active] 572480002782 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 572480002783 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 572480002784 trimerization site [polypeptide binding]; other site 572480002785 active site 572480002786 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572480002787 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 572480002788 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 572480002789 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480002790 NAD(P) binding site [chemical binding]; other site 572480002791 catalytic residues [active] 572480002792 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 572480002793 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572480002794 N- and C-terminal domain interface [polypeptide binding]; other site 572480002795 active site 572480002796 MgATP binding site [chemical binding]; other site 572480002797 catalytic site [active] 572480002798 metal binding site [ion binding]; metal-binding site 572480002799 glycerol binding site [chemical binding]; other site 572480002800 homotetramer interface [polypeptide binding]; other site 572480002801 homodimer interface [polypeptide binding]; other site 572480002802 FBP binding site [chemical binding]; other site 572480002803 protein IIAGlc interface [polypeptide binding]; other site 572480002804 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572480002805 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 572480002806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572480002807 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 572480002808 dimer interface [polypeptide binding]; other site 572480002809 conserved gate region; other site 572480002810 putative PBP binding loops; other site 572480002811 ABC-ATPase subunit interface; other site 572480002812 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572480002813 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 572480002814 dimer interface [polypeptide binding]; other site 572480002815 conserved gate region; other site 572480002816 putative PBP binding loops; other site 572480002817 ABC-ATPase subunit interface; other site 572480002818 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 572480002819 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 572480002820 Walker A/P-loop; other site 572480002821 ATP binding site [chemical binding]; other site 572480002822 Q-loop/lid; other site 572480002823 ABC transporter signature motif; other site 572480002824 Walker B; other site 572480002825 D-loop; other site 572480002826 H-loop/switch region; other site 572480002827 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 572480002828 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 572480002829 Walker A/P-loop; other site 572480002830 ATP binding site [chemical binding]; other site 572480002831 Q-loop/lid; other site 572480002832 ABC transporter signature motif; other site 572480002833 Walker B; other site 572480002834 D-loop; other site 572480002835 H-loop/switch region; other site 572480002836 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 572480002837 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572480002838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480002839 DNA-binding site [nucleotide binding]; DNA binding site 572480002840 UTRA domain; Region: UTRA; pfam07702 572480002841 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572480002842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480002843 DNA-binding site [nucleotide binding]; DNA binding site 572480002844 UTRA domain; Region: UTRA; pfam07702 572480002845 argininosuccinate lyase; Provisional; Region: PRK00855 572480002846 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 572480002847 active sites [active] 572480002848 tetramer interface [polypeptide binding]; other site 572480002849 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 572480002850 Response regulator receiver domain; Region: Response_reg; pfam00072 572480002851 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 572480002852 active site 572480002853 phosphorylation site [posttranslational modification] 572480002854 intermolecular recognition site; other site 572480002855 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 572480002856 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 572480002857 putative ATP binding site [chemical binding]; other site 572480002858 putative substrate interface [chemical binding]; other site 572480002859 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 572480002860 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 572480002861 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 572480002862 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 572480002863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480002864 putative active site [active] 572480002865 putative metal binding site [ion binding]; other site 572480002866 excinuclease ABC subunit B; Provisional; Region: PRK05298 572480002867 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 572480002868 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 572480002869 ATP-binding site [chemical binding]; other site 572480002870 ATP binding site [chemical binding]; other site 572480002871 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 572480002872 nucleotide binding region [chemical binding]; other site 572480002873 ATP-binding site [chemical binding]; other site 572480002874 Ultra-violet resistance protein B; Region: UvrB; pfam12344 572480002875 UvrB/uvrC motif; Region: UVR; pfam02151 572480002876 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 572480002877 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 572480002878 Catalytic site [active] 572480002879 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 572480002880 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 572480002881 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 572480002882 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 572480002883 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 572480002884 minor groove reading motif; other site 572480002885 helix-hairpin-helix signature motif; other site 572480002886 substrate binding pocket [chemical binding]; other site 572480002887 active site 572480002888 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 572480002889 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480002890 N-terminal plug; other site 572480002891 ligand-binding site [chemical binding]; other site 572480002892 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 572480002893 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480002894 N-terminal plug; other site 572480002895 ligand-binding site [chemical binding]; other site 572480002896 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 572480002897 HD domain; Region: HD_3; pfam13023 572480002898 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 572480002899 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 572480002900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480002901 Coenzyme A binding pocket [chemical binding]; other site 572480002902 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 572480002903 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 572480002904 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 572480002905 Catalytic site [active] 572480002906 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 572480002907 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 572480002908 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 572480002909 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 572480002910 homodimer interface [polypeptide binding]; other site 572480002911 NADP binding site [chemical binding]; other site 572480002912 substrate binding site [chemical binding]; other site 572480002913 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 572480002914 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 572480002915 5S rRNA interface [nucleotide binding]; other site 572480002916 CTC domain interface [polypeptide binding]; other site 572480002917 L16 interface [polypeptide binding]; other site 572480002918 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 572480002919 putative active site [active] 572480002920 catalytic residue [active] 572480002921 Predicted permeases [General function prediction only]; Region: COG0795 572480002922 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 572480002923 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 572480002924 nudix motif; other site 572480002925 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 572480002926 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 572480002927 active site 572480002928 metal binding site [ion binding]; metal-binding site 572480002929 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 572480002930 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 572480002931 FMN binding site [chemical binding]; other site 572480002932 substrate binding site [chemical binding]; other site 572480002933 putative catalytic residue [active] 572480002934 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 572480002935 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480002936 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 572480002937 active site 572480002938 HIGH motif; other site 572480002939 dimer interface [polypeptide binding]; other site 572480002940 KMSKS motif; other site 572480002941 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 572480002942 RNA binding surface [nucleotide binding]; other site 572480002943 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 572480002944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480002945 Zn2+ binding site [ion binding]; other site 572480002946 Mg2+ binding site [ion binding]; other site 572480002947 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 572480002948 synthetase active site [active] 572480002949 NTP binding site [chemical binding]; other site 572480002950 metal binding site [ion binding]; metal-binding site 572480002951 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 572480002952 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 572480002953 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 572480002954 putative nucleotide binding site [chemical binding]; other site 572480002955 uridine monophosphate binding site [chemical binding]; other site 572480002956 homohexameric interface [polypeptide binding]; other site 572480002957 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 572480002958 AAA domain; Region: AAA_14; pfam13173 572480002959 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 572480002960 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 572480002961 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 572480002962 active site 572480002963 hydrophilic channel; other site 572480002964 dimerization interface [polypeptide binding]; other site 572480002965 catalytic residues [active] 572480002966 active site lid [active] 572480002967 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 572480002968 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 572480002969 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 572480002970 Sporulation related domain; Region: SPOR; pfam05036 572480002971 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 572480002972 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 572480002973 dimer interface [polypeptide binding]; other site 572480002974 active site 572480002975 glycine-pyridoxal phosphate binding site [chemical binding]; other site 572480002976 folate binding site [chemical binding]; other site 572480002977 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 572480002978 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 572480002979 dimer interface [polypeptide binding]; other site 572480002980 putative anticodon binding site; other site 572480002981 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 572480002982 motif 1; other site 572480002983 active site 572480002984 motif 2; other site 572480002985 motif 3; other site 572480002986 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 572480002987 Colicin V production protein; Region: Colicin_V; pfam02674 572480002988 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 572480002989 ATP binding site [chemical binding]; other site 572480002990 G-X-G motif; other site 572480002991 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 572480002992 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572480002993 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572480002994 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 572480002995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480002996 replicative DNA helicase; Provisional; Region: PRK08506 572480002997 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 572480002998 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 572480002999 Walker A motif; other site 572480003000 ATP binding site [chemical binding]; other site 572480003001 Walker B motif; other site 572480003002 DNA binding loops [nucleotide binding] 572480003003 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 572480003004 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 572480003005 active site 572480003006 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 572480003007 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 572480003008 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 572480003009 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 572480003010 active site 572480003011 motif I; other site 572480003012 motif II; other site 572480003013 DNA ligase; Provisional; Region: PRK09125 572480003014 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 572480003015 DNA binding site [nucleotide binding] 572480003016 active site 572480003017 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 572480003018 DNA binding site [nucleotide binding] 572480003019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480003020 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 572480003021 NAD(P) binding site [chemical binding]; other site 572480003022 active site 572480003023 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 572480003024 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 572480003025 putative ribose interaction site [chemical binding]; other site 572480003026 putative ADP binding site [chemical binding]; other site 572480003027 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 572480003028 active site 572480003029 nucleotide binding site [chemical binding]; other site 572480003030 HIGH motif; other site 572480003031 KMSKS motif; other site 572480003032 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572480003033 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 572480003034 dimer interface [polypeptide binding]; other site 572480003035 active site 572480003036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480003037 active site 572480003038 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 572480003039 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 572480003040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480003041 catalytic residue [active] 572480003042 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 572480003043 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572480003044 multifunctional aminopeptidase A; Provisional; Region: PRK00913 572480003045 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 572480003046 interface (dimer of trimers) [polypeptide binding]; other site 572480003047 Substrate-binding/catalytic site; other site 572480003048 Zn-binding sites [ion binding]; other site 572480003049 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 572480003050 active site 572480003051 catalytic residues [active] 572480003052 metal binding site [ion binding]; metal-binding site 572480003053 Protein of unknown function, DUF417; Region: DUF417; cl01162 572480003054 alanine racemase; Reviewed; Region: alr; PRK00053 572480003055 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 572480003056 active site 572480003057 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480003058 dimer interface [polypeptide binding]; other site 572480003059 substrate binding site [chemical binding]; other site 572480003060 catalytic residues [active] 572480003061 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 572480003062 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480003063 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572480003064 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 572480003065 homotrimer interaction site [polypeptide binding]; other site 572480003066 putative active site [active] 572480003067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 572480003068 YheO-like PAS domain; Region: PAS_6; pfam08348 572480003069 HTH domain; Region: HTH_22; pfam13309 572480003070 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572480003071 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480003072 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572480003073 DctM-like transporters; Region: DctM; pfam06808 572480003074 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572480003075 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 572480003076 selT/selW/selH selenoprotein domain; Region: CXXU_selWTH; TIGR02174 572480003077 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 572480003078 SIR2-like domain; Region: SIR2_2; pfam13289 572480003079 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 572480003080 binding surface 572480003081 TPR repeat; Region: TPR_11; pfam13414 572480003082 TPR motif; other site 572480003083 TPR repeat; Region: TPR_11; pfam13414 572480003084 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 572480003085 binding surface 572480003086 TPR repeat; Region: TPR_11; pfam13414 572480003087 TPR motif; other site 572480003088 TPR repeat; Region: TPR_11; pfam13414 572480003089 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 572480003090 binding surface 572480003091 TPR motif; other site 572480003092 TPR repeat; Region: TPR_11; pfam13414 572480003093 MOSC domain; Region: MOSC; pfam03473 572480003094 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 572480003095 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 572480003096 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 572480003097 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 572480003098 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 572480003099 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003100 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003101 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 572480003102 molybdopterin cofactor binding site; other site 572480003103 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003104 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 572480003105 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572480003106 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 572480003107 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 572480003108 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 572480003109 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003110 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003111 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 572480003112 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 572480003113 molybdopterin cofactor binding site; other site 572480003114 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 572480003115 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480003116 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 572480003117 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 572480003118 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 572480003119 putative ligand binding site [chemical binding]; other site 572480003120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003121 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 572480003122 ATP binding site [chemical binding]; other site 572480003123 Mg2+ binding site [ion binding]; other site 572480003124 G-X-G motif; other site 572480003125 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003126 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 572480003127 active site 572480003128 phosphorylation site [posttranslational modification] 572480003129 intermolecular recognition site; other site 572480003130 dimerization interface [polypeptide binding]; other site 572480003131 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 572480003132 metal-binding site [ion binding] 572480003133 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 572480003134 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 572480003135 DsrE/DsrF-like family; Region: DrsE; cl00672 572480003136 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 572480003137 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 572480003138 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 572480003139 selenium donor protein; Region: selD; TIGR00476 572480003140 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 572480003141 dimerization interface [polypeptide binding]; other site 572480003142 putative ATP binding site [chemical binding]; other site 572480003143 selenocysteine synthase; Provisional; Region: PRK04311 572480003144 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 572480003145 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480003146 catalytic residue [active] 572480003147 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 572480003148 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 572480003149 G1 box; other site 572480003150 putative GEF interaction site [polypeptide binding]; other site 572480003151 GTP/Mg2+ binding site [chemical binding]; other site 572480003152 Switch I region; other site 572480003153 G2 box; other site 572480003154 G3 box; other site 572480003155 Switch II region; other site 572480003156 G4 box; other site 572480003157 G5 box; other site 572480003158 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 572480003159 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 572480003160 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 572480003161 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572480003162 Methyltransferase domain; Region: Methyltransf_12; pfam08242 572480003163 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 572480003164 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 572480003165 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 572480003166 active site 572480003167 DNA binding site [nucleotide binding] 572480003168 Int/Topo IB signature motif; other site 572480003169 Helix-turn-helix domain; Region: HTH_17; pfam12728 572480003170 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 572480003171 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 572480003172 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 572480003173 active site 572480003174 Restriction endonuclease; Region: Mrr_cat; pfam04471 572480003175 Protein of unknown function (DUF511); Region: DUF511; cl01114 572480003176 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572480003177 active site 572480003178 NTP binding site [chemical binding]; other site 572480003179 metal binding triad [ion binding]; metal-binding site 572480003180 antibiotic binding site [chemical binding]; other site 572480003181 Uncharacterized conserved protein [Function unknown]; Region: COG2361 572480003182 NIPSNAP; Region: NIPSNAP; pfam07978 572480003183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003184 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003186 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 572480003187 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 572480003188 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 572480003189 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 572480003190 Potassium binding sites [ion binding]; other site 572480003191 Cesium cation binding sites [ion binding]; other site 572480003192 PBP superfamily domain; Region: PBP_like_2; cl17296 572480003193 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 572480003194 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 572480003195 dimer interface [polypeptide binding]; other site 572480003196 conserved gate region; other site 572480003197 putative PBP binding loops; other site 572480003198 ABC-ATPase subunit interface; other site 572480003199 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 572480003200 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 572480003201 dimer interface [polypeptide binding]; other site 572480003202 conserved gate region; other site 572480003203 putative PBP binding loops; other site 572480003204 ABC-ATPase subunit interface; other site 572480003205 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 572480003206 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 572480003207 Walker A/P-loop; other site 572480003208 ATP binding site [chemical binding]; other site 572480003209 Q-loop/lid; other site 572480003210 ABC transporter signature motif; other site 572480003211 Walker B; other site 572480003212 D-loop; other site 572480003213 H-loop/switch region; other site 572480003214 Predicted flavoprotein [General function prediction only]; Region: COG0431 572480003215 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572480003216 Predicted permeases [General function prediction only]; Region: COG0679 572480003217 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 572480003218 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 572480003219 catalytic triad [active] 572480003220 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 572480003221 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480003222 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480003223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003224 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 572480003225 ATP binding site [chemical binding]; other site 572480003226 Mg2+ binding site [ion binding]; other site 572480003227 G-X-G motif; other site 572480003228 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 572480003229 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 572480003230 active site 572480003231 tetramer interface [polypeptide binding]; other site 572480003232 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 572480003233 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 572480003234 inhibitor site; inhibition site 572480003235 active site 572480003236 dimer interface [polypeptide binding]; other site 572480003237 catalytic residue [active] 572480003238 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 572480003239 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 572480003240 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572480003241 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 572480003242 putative ligand binding site [chemical binding]; other site 572480003243 NAD binding site [chemical binding]; other site 572480003244 catalytic site [active] 572480003245 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 572480003246 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 572480003247 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 572480003248 galactarate dehydratase; Region: galactar-dH20; TIGR03248 572480003249 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 572480003250 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 572480003251 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 572480003252 Ligand Binding Site [chemical binding]; other site 572480003253 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572480003254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480003255 DNA-binding site [nucleotide binding]; DNA binding site 572480003256 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 572480003257 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 572480003258 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 572480003259 domain interfaces; other site 572480003260 active site 572480003261 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 572480003262 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 572480003263 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 572480003264 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 572480003265 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 572480003266 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 572480003267 dimerization interface [polypeptide binding]; other site 572480003268 active site 572480003269 HipA N-terminal domain; Region: Couple_hipA; pfam13657 572480003270 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 572480003271 HipA-like N-terminal domain; Region: HipA_N; pfam07805 572480003272 HipA-like C-terminal domain; Region: HipA_C; pfam07804 572480003273 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 572480003274 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 572480003275 non-specific DNA binding site [nucleotide binding]; other site 572480003276 salt bridge; other site 572480003277 sequence-specific DNA binding site [nucleotide binding]; other site 572480003278 GTP-binding protein YchF; Reviewed; Region: PRK09601 572480003279 YchF GTPase; Region: YchF; cd01900 572480003280 G1 box; other site 572480003281 GTP/Mg2+ binding site [chemical binding]; other site 572480003282 Switch I region; other site 572480003283 G2 box; other site 572480003284 Switch II region; other site 572480003285 G3 box; other site 572480003286 G4 box; other site 572480003287 G5 box; other site 572480003288 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 572480003289 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480003290 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480003291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003292 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 572480003293 dimer interface [polypeptide binding]; other site 572480003294 phosphorylation site [posttranslational modification] 572480003295 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 572480003296 ATP binding site [chemical binding]; other site 572480003297 G-X-G motif; other site 572480003298 CheW-like domain; Region: CheW; pfam01584 572480003299 putative recombination protein RecO; Provisional; Region: PRK13908 572480003300 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 572480003301 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480003302 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 572480003303 active site 572480003304 phosphorylation site [posttranslational modification] 572480003305 intermolecular recognition site; other site 572480003306 dimerization interface [polypeptide binding]; other site 572480003307 DNA binding site [nucleotide binding] 572480003308 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 572480003309 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003310 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 572480003311 active site 572480003312 phosphorylation site [posttranslational modification] 572480003313 intermolecular recognition site; other site 572480003314 dimerization interface [polypeptide binding]; other site 572480003315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003316 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 572480003317 dimer interface [polypeptide binding]; other site 572480003318 phosphorylation site [posttranslational modification] 572480003319 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 572480003320 ATP binding site [chemical binding]; other site 572480003321 Mg2+ binding site [ion binding]; other site 572480003322 G-X-G motif; other site 572480003323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003324 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 572480003325 dimer interface [polypeptide binding]; other site 572480003326 phosphorylation site [posttranslational modification] 572480003327 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 572480003328 ATP binding site [chemical binding]; other site 572480003329 Mg2+ binding site [ion binding]; other site 572480003330 G-X-G motif; other site 572480003331 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003332 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 572480003333 active site 572480003334 phosphorylation site [posttranslational modification] 572480003335 intermolecular recognition site; other site 572480003336 dimerization interface [polypeptide binding]; other site 572480003337 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 572480003338 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 572480003339 putative ligand binding site [chemical binding]; other site 572480003340 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572480003341 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 572480003342 TM-ABC transporter signature motif; other site 572480003343 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 572480003344 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 572480003345 TM-ABC transporter signature motif; other site 572480003346 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 572480003347 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 572480003348 Walker A/P-loop; other site 572480003349 ATP binding site [chemical binding]; other site 572480003350 Q-loop/lid; other site 572480003351 ABC transporter signature motif; other site 572480003352 Walker B; other site 572480003353 D-loop; other site 572480003354 H-loop/switch region; other site 572480003355 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 572480003356 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 572480003357 Walker A/P-loop; other site 572480003358 ATP binding site [chemical binding]; other site 572480003359 Q-loop/lid; other site 572480003360 ABC transporter signature motif; other site 572480003361 Walker B; other site 572480003362 D-loop; other site 572480003363 H-loop/switch region; other site 572480003364 UreD urease accessory protein; Region: UreD; pfam01774 572480003365 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 572480003366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480003367 putative substrate translocation pore; other site 572480003368 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 572480003369 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572480003370 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572480003371 Walker A/P-loop; other site 572480003372 ATP binding site [chemical binding]; other site 572480003373 Q-loop/lid; other site 572480003374 ABC transporter signature motif; other site 572480003375 Walker B; other site 572480003376 D-loop; other site 572480003377 H-loop/switch region; other site 572480003378 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 572480003379 dimer interface [polypeptide binding]; other site 572480003380 conserved gate region; other site 572480003381 putative PBP binding loops; other site 572480003382 ABC-ATPase subunit interface; other site 572480003383 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 572480003384 dimer interface [polypeptide binding]; other site 572480003385 conserved gate region; other site 572480003386 putative PBP binding loops; other site 572480003387 ABC-ATPase subunit interface; other site 572480003388 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480003389 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 572480003390 substrate binding pocket [chemical binding]; other site 572480003391 membrane-bound complex binding site; other site 572480003392 hinge residues; other site 572480003393 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572480003394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480003395 DNA-binding site [nucleotide binding]; DNA binding site 572480003396 FCD domain; Region: FCD; cl11656 572480003397 allantoicase; Provisional; Region: PRK13257 572480003398 Allantoicase repeat; Region: Allantoicase; pfam03561 572480003399 Allantoicase repeat; Region: Allantoicase; pfam03561 572480003400 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 572480003401 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 572480003402 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 572480003403 alpha-gamma subunit interface [polypeptide binding]; other site 572480003404 beta-gamma subunit interface [polypeptide binding]; other site 572480003405 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 572480003406 alpha-beta subunit interface [polypeptide binding]; other site 572480003407 urease subunit alpha; Reviewed; Region: ureC; PRK13207 572480003408 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 572480003409 subunit interactions [polypeptide binding]; other site 572480003410 active site 572480003411 flap region; other site 572480003412 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cl03727 572480003413 dimer interface [polypeptide binding]; other site 572480003414 catalytic residues [active] 572480003415 UreF; Region: UreF; pfam01730 572480003416 AAA domain; Region: AAA_18; pfam13238 572480003417 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 572480003418 G1 box; other site 572480003419 GTP/Mg2+ binding site [chemical binding]; other site 572480003420 G2 box; other site 572480003421 Switch I region; other site 572480003422 G3 box; other site 572480003423 Switch II region; other site 572480003424 G4 box; other site 572480003425 G5 box; other site 572480003426 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572480003427 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 572480003428 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 572480003429 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572480003430 thiamine monophosphate kinase; Provisional; Region: PRK05731 572480003431 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 572480003432 ATP binding site [chemical binding]; other site 572480003433 dimerization interface [polypeptide binding]; other site 572480003434 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 572480003435 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 572480003436 Permutation of conserved domain; other site 572480003437 active site 572480003438 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 572480003439 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 572480003440 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480003441 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480003442 dimer interface [polypeptide binding]; other site 572480003443 putative CheW interface [polypeptide binding]; other site 572480003444 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 572480003445 RuvA N terminal domain; Region: RuvA_N; pfam01330 572480003446 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 572480003447 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 572480003448 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 572480003449 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480003450 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480003451 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 572480003452 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572480003453 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 572480003454 four helix bundle protein; Region: TIGR02436 572480003455 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 572480003456 nucleotide binding site/active site [active] 572480003457 HIT family signature motif; other site 572480003458 catalytic residue [active] 572480003459 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 572480003460 homotrimer interaction site [polypeptide binding]; other site 572480003461 putative active site [active] 572480003462 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 572480003463 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480003464 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 572480003465 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480003466 Zn2+ binding site [ion binding]; other site 572480003467 Mg2+ binding site [ion binding]; other site 572480003468 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 572480003469 non-specific DNA binding site [nucleotide binding]; other site 572480003470 salt bridge; other site 572480003471 sequence-specific DNA binding site [nucleotide binding]; other site 572480003472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480003473 dimer interface [polypeptide binding]; other site 572480003474 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480003475 putative CheW interface [polypeptide binding]; other site 572480003476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 572480003477 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 572480003478 Predicted transcriptional regulator [Transcription]; Region: COG2932 572480003479 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 572480003480 Catalytic site [active] 572480003481 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 572480003482 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 572480003483 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 572480003484 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 572480003485 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 572480003486 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 572480003487 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 572480003488 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 572480003489 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 572480003490 putative translocon binding site; other site 572480003491 protein-rRNA interface [nucleotide binding]; other site 572480003492 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 572480003493 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 572480003494 G-X-X-G motif; other site 572480003495 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 572480003496 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 572480003497 23S rRNA interface [nucleotide binding]; other site 572480003498 5S rRNA interface [nucleotide binding]; other site 572480003499 putative antibiotic binding site [chemical binding]; other site 572480003500 L25 interface [polypeptide binding]; other site 572480003501 L27 interface [polypeptide binding]; other site 572480003502 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; cl09943 572480003503 trigger factor interaction site; other site 572480003504 23S rRNA interface [nucleotide binding]; other site 572480003505 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 572480003506 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 572480003507 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 572480003508 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 572480003509 RNA binding site [nucleotide binding]; other site 572480003510 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 572480003511 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 572480003512 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 572480003513 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 572480003514 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 572480003515 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 572480003516 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572480003517 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572480003518 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 572480003519 23S rRNA interface [nucleotide binding]; other site 572480003520 5S rRNA interface [nucleotide binding]; other site 572480003521 L27 interface [polypeptide binding]; other site 572480003522 L5 interface [polypeptide binding]; other site 572480003523 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 572480003524 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 572480003525 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 572480003526 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 572480003527 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 572480003528 SecY translocase; Region: SecY; pfam00344 572480003529 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 572480003530 active site 572480003531 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 572480003532 rRNA binding site [nucleotide binding]; other site 572480003533 predicted 30S ribosome binding site; other site 572480003534 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480003535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480003536 metal binding site [ion binding]; metal-binding site 572480003537 active site 572480003538 I-site; other site 572480003539 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 572480003540 Fe-S cluster binding site [ion binding]; other site 572480003541 active site 572480003542 DDE superfamily endonuclease; Region: DDE_5; cl17874 572480003543 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 572480003544 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 572480003545 dimer interface [polypeptide binding]; other site 572480003546 anticodon binding site; other site 572480003547 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 572480003548 homodimer interface [polypeptide binding]; other site 572480003549 motif 1; other site 572480003550 active site 572480003551 motif 2; other site 572480003552 GAD domain; Region: GAD; pfam02938 572480003553 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 572480003554 active site 572480003555 motif 3; other site 572480003556 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 572480003557 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 572480003558 intersubunit interface [polypeptide binding]; other site 572480003559 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 572480003560 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 572480003561 adenylate kinase; Reviewed; Region: adk; PRK00279 572480003562 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 572480003563 AMP-binding site [chemical binding]; other site 572480003564 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 572480003565 adenylate kinase; Reviewed; Region: adk; PRK00279 572480003566 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 572480003567 AMP-binding site [chemical binding]; other site 572480003568 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 572480003569 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 572480003570 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 572480003571 MPT binding site; other site 572480003572 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 572480003573 Sel1 repeat; Region: Sel1; cl02723 572480003574 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 572480003575 alanine racemase; Reviewed; Region: alr; PRK00053 572480003576 active site 572480003577 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480003578 dimer interface [polypeptide binding]; other site 572480003579 substrate binding site [chemical binding]; other site 572480003580 catalytic residues [active] 572480003581 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 572480003582 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 572480003583 GIY-YIG motif/motif A; other site 572480003584 active site 572480003585 catalytic site [active] 572480003586 putative DNA binding site [nucleotide binding]; other site 572480003587 metal binding site [ion binding]; metal-binding site 572480003588 UvrB/uvrC motif; Region: UVR; pfam02151 572480003589 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 572480003590 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 572480003591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480003592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480003593 metal binding site [ion binding]; metal-binding site 572480003594 active site 572480003595 I-site; other site 572480003596 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480003597 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 572480003598 HSP70 interaction site [polypeptide binding]; other site 572480003599 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572480003600 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 572480003601 catalytic residues [active] 572480003602 Radical SAM superfamily; Region: Radical_SAM; pfam04055 572480003603 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 572480003604 FeS/SAM binding site; other site 572480003605 ORF6N domain; Region: ORF6N; pfam10543 572480003606 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572480003607 putative catalytic site [active] 572480003608 putative metal binding site [ion binding]; other site 572480003609 putative phosphate binding site [ion binding]; other site 572480003610 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 572480003611 putative catalytic residues [active] 572480003612 Predicted permeases [General function prediction only]; Region: COG0679 572480003613 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 572480003614 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 572480003615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003616 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; cl00080 572480003617 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 572480003618 ATP binding site [chemical binding]; other site 572480003619 Mg2+ binding site [ion binding]; other site 572480003620 G-X-G motif; other site 572480003621 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480003622 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 572480003623 active site 572480003624 phosphorylation site [posttranslational modification] 572480003625 intermolecular recognition site; other site 572480003626 dimerization interface [polypeptide binding]; other site 572480003627 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480003628 DNA binding site [nucleotide binding] 572480003629 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003630 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 572480003631 active site 572480003632 phosphorylation site [posttranslational modification] 572480003633 intermolecular recognition site; other site 572480003634 dimerization interface [polypeptide binding]; other site 572480003635 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480003636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480003637 metal binding site [ion binding]; metal-binding site 572480003638 active site 572480003639 I-site; other site 572480003640 Cache domain; Region: Cache_1; pfam02743 572480003641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003642 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 572480003643 dimer interface [polypeptide binding]; other site 572480003644 phosphorylation site [posttranslational modification] 572480003645 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 572480003646 ATP binding site [chemical binding]; other site 572480003647 Mg2+ binding site [ion binding]; other site 572480003648 G-X-G motif; other site 572480003649 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003650 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 572480003651 active site 572480003652 phosphorylation site [posttranslational modification] 572480003653 intermolecular recognition site; other site 572480003654 dimerization interface [polypeptide binding]; other site 572480003655 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572480003656 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 572480003657 active site 572480003658 phosphorylation site [posttranslational modification] 572480003659 intermolecular recognition site; other site 572480003660 dimerization interface [polypeptide binding]; other site 572480003661 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 572480003662 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480003663 catalytic residue [active] 572480003664 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572480003665 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 572480003666 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003668 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 572480003669 Isochorismatase family; Region: Isochorismatase; pfam00857 572480003670 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 572480003671 catalytic triad [active] 572480003672 conserved cis-peptide bond; other site 572480003673 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 572480003674 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003676 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003678 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 572480003679 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480003680 putative substrate translocation pore; other site 572480003681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480003682 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 572480003683 putative substrate translocation pore; other site 572480003684 Herpesvirus UL6 like; Region: Herpes_UL6; pfam01763 572480003685 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480003686 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480003687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 572480003688 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480003689 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 572480003690 NAD(P) binding site [chemical binding]; other site 572480003691 putative active site [active] 572480003692 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 572480003693 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; cl00279 572480003694 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480003695 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480003696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480003697 NADH(P)-binding; Region: NAD_binding_10; pfam13460 572480003698 NAD(P) binding site [chemical binding]; other site 572480003699 active site 572480003700 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003702 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 572480003703 substrate binding site [chemical binding]; other site 572480003704 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 572480003705 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 572480003706 S-adenosylmethionine binding site [chemical binding]; other site 572480003707 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 572480003708 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 572480003709 substrate binding pocket [chemical binding]; other site 572480003710 membrane-bound complex binding site; other site 572480003711 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 572480003712 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 572480003713 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 572480003714 active site 572480003715 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 572480003716 dinuclear metal binding motif [ion binding]; other site 572480003717 Sensory domain found in PocR; Region: PocR; pfam10114 572480003718 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 572480003719 PAS domain; Region: PAS_9; pfam13426 572480003720 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 572480003721 putative active site [active] 572480003722 heme pocket [chemical binding]; other site 572480003723 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 572480003724 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 572480003725 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480003726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480003727 metal binding site [ion binding]; metal-binding site 572480003728 active site 572480003729 I-site; other site 572480003730 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572480003731 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 572480003732 PAS fold; Region: PAS_4; pfam08448 572480003733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003734 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 572480003735 dimer interface [polypeptide binding]; other site 572480003736 phosphorylation site [posttranslational modification] 572480003737 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 572480003738 ATP binding site [chemical binding]; other site 572480003739 Mg2+ binding site [ion binding]; other site 572480003740 G-X-G motif; other site 572480003741 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 572480003742 nudix motif; other site 572480003743 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 572480003744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480003745 NAD binding site [chemical binding]; other site 572480003746 catalytic residues [active] 572480003747 substrate binding site [chemical binding]; other site 572480003748 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 572480003749 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572480003750 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572480003751 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 572480003752 ligand binding site [chemical binding]; other site 572480003753 flexible hinge region; other site 572480003754 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 572480003755 putative metal binding site [ion binding]; other site 572480003756 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 572480003757 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 572480003758 putative active site [active] 572480003759 putative ligand binding site [chemical binding]; other site 572480003760 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 572480003761 putative NAD(P) binding site [chemical binding]; other site 572480003762 hypothetical protein; Provisional; Region: PRK04164 572480003763 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 572480003764 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 572480003765 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 572480003766 dimerization interface [polypeptide binding]; other site 572480003767 NAD binding site [chemical binding]; other site 572480003768 ligand binding site [chemical binding]; other site 572480003769 catalytic site [active] 572480003770 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 572480003771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572480003772 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 572480003773 putative dimerization interface [polypeptide binding]; other site 572480003774 Predicted membrane protein [Function unknown]; Region: COG2855 572480003775 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 572480003776 Aspartase; Region: Aspartase; cd01357 572480003777 active sites [active] 572480003778 tetramer interface [polypeptide binding]; other site 572480003779 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 572480003780 active site 572480003781 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 572480003782 PAS fold; Region: PAS_3; pfam08447 572480003783 putative active site [active] 572480003784 heme pocket [chemical binding]; other site 572480003785 PAS fold; Region: PAS_3; pfam08447 572480003786 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003787 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 572480003788 dimer interface [polypeptide binding]; other site 572480003789 phosphorylation site [posttranslational modification] 572480003790 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 572480003791 ATP binding site [chemical binding]; other site 572480003792 Mg2+ binding site [ion binding]; other site 572480003793 G-X-G motif; other site 572480003794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480003795 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 572480003796 active site 572480003797 phosphorylation site [posttranslational modification] 572480003798 intermolecular recognition site; other site 572480003799 dimerization interface [polypeptide binding]; other site 572480003800 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; cl17355 572480003801 DNA binding site [nucleotide binding] 572480003802 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480003803 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480003804 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572480003805 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 572480003806 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 572480003807 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480003808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480003809 dimer interface [polypeptide binding]; other site 572480003810 putative CheW interface [polypeptide binding]; other site 572480003811 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 572480003812 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572480003813 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572480003814 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 572480003815 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572480003816 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 572480003817 metal binding site [ion binding]; metal-binding site 572480003818 dimer interface [polypeptide binding]; other site 572480003819 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 572480003820 Proline racemase; Region: Pro_racemase; pfam05544 572480003821 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 572480003822 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572480003823 NAD(P) binding site [chemical binding]; other site 572480003824 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 572480003825 Ligand Binding Site [chemical binding]; other site 572480003826 DctM-like transporters; Region: DctM; pfam06808 572480003827 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572480003828 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 572480003829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480003830 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 572480003831 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572480003832 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 572480003833 active site 572480003834 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480003835 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 572480003836 NAD(P) binding site [chemical binding]; other site 572480003837 catalytic residues [active] 572480003838 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 572480003839 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 572480003840 inhibitor-cofactor binding pocket; inhibition site 572480003841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480003842 catalytic residue [active] 572480003843 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 572480003844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480003845 putative substrate translocation pore; other site 572480003846 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 572480003847 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 572480003848 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 572480003849 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 572480003850 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 572480003851 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 572480003852 Walker A/P-loop; other site 572480003853 ATP binding site [chemical binding]; other site 572480003854 Q-loop/lid; other site 572480003855 ABC transporter signature motif; other site 572480003856 Walker B; other site 572480003857 D-loop; other site 572480003858 H-loop/switch region; other site 572480003859 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 572480003860 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 572480003861 Walker A/P-loop; other site 572480003862 ATP binding site [chemical binding]; other site 572480003863 Q-loop/lid; other site 572480003864 ABC transporter signature motif; other site 572480003865 Walker B; other site 572480003866 D-loop; other site 572480003867 H-loop/switch region; other site 572480003868 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 572480003869 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480003870 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480003871 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 572480003872 Ferritin-like domain; Region: Ferritin; pfam00210 572480003873 ferroxidase diiron center [ion binding]; other site 572480003874 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 572480003875 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 572480003876 DHHA2 domain; Region: DHHA2; pfam02833 572480003877 hypothetical protein; Provisional; Region: PRK10621 572480003878 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572480003879 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 572480003880 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480003881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480003882 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 572480003883 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 572480003884 active site 572480003885 catalytic residues [active] 572480003886 metal binding site [ion binding]; metal-binding site 572480003887 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572480003888 active site 572480003889 NTP binding site [chemical binding]; other site 572480003890 metal binding triad [ion binding]; metal-binding site 572480003891 antibiotic binding site [chemical binding]; other site 572480003892 Protein of unknown function DUF86; Region: DUF86; cl01031 572480003893 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 572480003894 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 572480003895 putative deacylase active site [active] 572480003896 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 572480003897 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 572480003898 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 572480003899 NADPH bind site [chemical binding]; other site 572480003900 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 572480003901 putative FMN binding site [chemical binding]; other site 572480003902 NADPH bind site [chemical binding]; other site 572480003903 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 572480003904 heme-binding site [chemical binding]; other site 572480003905 Response regulator receiver domain; Region: Response_reg; pfam00072 572480003906 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 572480003907 active site 572480003908 phosphorylation site [posttranslational modification] 572480003909 intermolecular recognition site; other site 572480003910 dimerization interface [polypeptide binding]; other site 572480003911 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 572480003912 PAS domain; Region: PAS_9; pfam13426 572480003913 putative active site [active] 572480003914 heme pocket [chemical binding]; other site 572480003915 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480003916 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 572480003917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480003918 NAD(P) binding site [chemical binding]; other site 572480003919 active site 572480003920 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 572480003921 Paraquat-inducible protein A; Region: PqiA; pfam04403 572480003922 Paraquat-inducible protein A; Region: PqiA; pfam04403 572480003923 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 572480003924 mce related protein; Region: MCE; pfam02470 572480003925 mce related protein; Region: MCE; pfam02470 572480003926 mce related protein; Region: MCE; pfam02470 572480003927 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 572480003928 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 572480003929 tetramer interface [polypeptide binding]; other site 572480003930 heme binding pocket [chemical binding]; other site 572480003931 NADPH binding site [chemical binding]; other site 572480003932 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 572480003933 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480003934 haemagglutination activity domain; Region: Haemagg_act; pfam05860 572480003935 FecR protein; Region: FecR; pfam04773 572480003936 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 572480003937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480003938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480003939 metal binding site [ion binding]; metal-binding site 572480003940 active site 572480003941 I-site; other site 572480003942 heat shock protein 90; Provisional; Region: PRK05218 572480003943 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 572480003944 ATP binding site [chemical binding]; other site 572480003945 Mg2+ binding site [ion binding]; other site 572480003946 G-X-G motif; other site 572480003947 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572480003948 active site 572480003949 NTP binding site [chemical binding]; other site 572480003950 metal binding triad [ion binding]; metal-binding site 572480003951 antibiotic binding site [chemical binding]; other site 572480003952 Protein of unknown function DUF86; Region: DUF86; cl01031 572480003953 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572480003954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572480003955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572480003956 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 572480003957 dimerization interface [polypeptide binding]; other site 572480003958 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572480003959 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480003960 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480003961 N-terminal plug; other site 572480003962 ligand-binding site [chemical binding]; other site 572480003963 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 572480003964 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 572480003965 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 572480003966 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 572480003967 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480003968 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480003969 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 572480003970 Fusaric acid resistance protein family; Region: FUSC; pfam04632 572480003971 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 572480003972 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572480003973 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572480003974 MarR family; Region: MarR_2; pfam12802 572480003975 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572480003976 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 572480003977 membrane-bound complex binding site; other site 572480003978 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 572480003979 DctM-like transporters; Region: DctM; pfam06808 572480003980 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 572480003981 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 572480003982 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 572480003983 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 572480003984 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 572480003985 putative active site [active] 572480003986 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480003987 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572480003988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480003989 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 572480003990 ATP binding site [chemical binding]; other site 572480003991 Mg2+ binding site [ion binding]; other site 572480003992 G-X-G motif; other site 572480003993 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480003994 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 572480003995 active site 572480003996 phosphorylation site [posttranslational modification] 572480003997 intermolecular recognition site; other site 572480003998 dimerization interface [polypeptide binding]; other site 572480003999 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480004000 DNA binding site [nucleotide binding] 572480004001 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572480004002 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480004003 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 572480004004 DctM-like transporters; Region: DctM; pfam06808 572480004005 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 572480004006 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480004007 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 572480004008 DctM-like transporters; Region: DctM; pfam06808 572480004009 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572480004010 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572480004011 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 572480004012 active site 572480004013 catalytic triad [active] 572480004014 dimer interface [polypeptide binding]; other site 572480004015 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 572480004016 hypothetical protein; Provisional; Region: PRK05463 572480004017 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480004018 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 572480004019 active site 572480004020 phosphorylation site [posttranslational modification] 572480004021 intermolecular recognition site; other site 572480004022 dimerization interface [polypeptide binding]; other site 572480004023 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480004024 DNA binding site [nucleotide binding] 572480004025 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480004026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004027 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; cl00080 572480004028 dimer interface [polypeptide binding]; other site 572480004029 phosphorylation site [posttranslational modification] 572480004030 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 572480004031 ATP binding site [chemical binding]; other site 572480004032 Mg2+ binding site [ion binding]; other site 572480004033 G-X-G motif; other site 572480004034 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 572480004035 putative active site [active] 572480004036 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 572480004037 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 572480004038 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 572480004039 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 572480004040 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572480004041 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 572480004042 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 572480004043 ATP binding site [chemical binding]; other site 572480004044 Mg++ binding site [ion binding]; other site 572480004045 motif III; other site 572480004046 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 572480004047 nucleotide binding region [chemical binding]; other site 572480004048 ATP-binding site [chemical binding]; other site 572480004049 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 572480004050 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480004051 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480004052 metal binding site [ion binding]; metal-binding site 572480004053 active site 572480004054 I-site; other site 572480004055 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 572480004056 Ion transport protein; Region: Ion_trans; pfam00520 572480004057 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 572480004058 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 572480004059 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572480004060 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 572480004061 putative active site [active] 572480004062 PhoH-like protein; Region: PhoH; cl17668 572480004063 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 572480004064 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 572480004065 DNA-binding site [nucleotide binding]; DNA binding site 572480004066 RNA-binding motif; other site 572480004067 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 572480004068 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572480004069 S-adenosylmethionine binding site [chemical binding]; other site 572480004070 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 572480004071 Thioredoxin; Region: Thioredoxin_4; cl17273 572480004072 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 572480004073 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 572480004074 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 572480004075 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 572480004076 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572480004077 Uncharacterized conserved protein [Function unknown]; Region: COG3347 572480004078 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 572480004079 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 572480004080 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 572480004081 active site 572480004082 catalytic site [active] 572480004083 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572480004084 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 572480004085 dimer interface [polypeptide binding]; other site 572480004086 conserved gate region; other site 572480004087 putative PBP binding loops; other site 572480004088 ABC-ATPase subunit interface; other site 572480004089 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 572480004090 dimer interface [polypeptide binding]; other site 572480004091 conserved gate region; other site 572480004092 putative PBP binding loops; other site 572480004093 ABC-ATPase subunit interface; other site 572480004094 potential frameshift: common BLAST hit: gi|224371600|ref|YP_002605764.1| PotA1 572480004095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004096 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 572480004097 Walker A/P-loop; other site 572480004098 ATP binding site [chemical binding]; other site 572480004099 Q-loop/lid; other site 572480004100 ABC transporter signature motif; other site 572480004101 Walker B; other site 572480004102 D-loop; other site 572480004103 H-loop/switch region; other site 572480004104 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 572480004105 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572480004106 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 572480004107 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 572480004108 putative N- and C-terminal domain interface [polypeptide binding]; other site 572480004109 putative active site [active] 572480004110 putative MgATP binding site [chemical binding]; other site 572480004111 catalytic site [active] 572480004112 metal binding site [ion binding]; metal-binding site 572480004113 putative carbohydrate binding site [chemical binding]; other site 572480004114 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572480004115 Cupin domain; Region: Cupin_2; pfam07883 572480004116 Ion transport protein; Region: Ion_trans; pfam00520 572480004117 Ion channel; Region: Ion_trans_2; pfam07885 572480004118 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 572480004119 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480004120 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 572480004121 S-adenosylmethionine binding site [chemical binding]; other site 572480004122 Transglycosylase SLT domain; Region: SLT_2; pfam13406 572480004123 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 572480004124 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572480004125 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 572480004126 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480004127 catalytic residues [active] 572480004128 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 572480004129 PAS domain S-box; Region: sensory_box; TIGR00229 572480004130 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 572480004131 putative active site [active] 572480004132 heme pocket [chemical binding]; other site 572480004133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004134 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 572480004135 dimer interface [polypeptide binding]; other site 572480004136 phosphorylation site [posttranslational modification] 572480004137 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 572480004138 ATP binding site [chemical binding]; other site 572480004139 Mg2+ binding site [ion binding]; other site 572480004140 G-X-G motif; other site 572480004141 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480004142 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 572480004143 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004144 Walker A/P-loop; other site 572480004145 ATP binding site [chemical binding]; other site 572480004146 Q-loop/lid; other site 572480004147 ABC transporter signature motif; other site 572480004148 Walker B; other site 572480004149 D-loop; other site 572480004150 H-loop/switch region; other site 572480004151 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 572480004152 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 572480004153 motif II; other site 572480004154 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572480004155 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480004156 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 572480004157 hypothetical protein; Provisional; Region: PRK12378 572480004158 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 572480004159 catalytic triad [active] 572480004160 Peptidase family M48; Region: Peptidase_M48; pfam01435 572480004161 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 572480004162 aromatic amino acid exporter; Provisional; Region: PRK11689 572480004163 EamA-like transporter family; Region: EamA; pfam00892 572480004164 EamA-like transporter family; Region: EamA; cl17759 572480004165 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; cl17557 572480004166 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 572480004167 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572480004168 putative acyl-acceptor binding pocket; other site 572480004169 Esterase/lipase [General function prediction only]; Region: COG1647 572480004170 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 572480004171 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 572480004172 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 572480004173 active site 572480004174 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 572480004175 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 572480004176 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 572480004177 substrate binding site [chemical binding]; other site 572480004178 oxyanion hole (OAH) forming residues; other site 572480004179 trimer interface [polypeptide binding]; other site 572480004180 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 572480004181 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 572480004182 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 572480004183 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 572480004184 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 572480004185 dimer interface [polypeptide binding]; other site 572480004186 active site 572480004187 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 572480004188 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 572480004189 acyl-activating enzyme (AAE) consensus motif; other site 572480004190 putative AMP binding site [chemical binding]; other site 572480004191 putative active site [active] 572480004192 putative CoA binding site [chemical binding]; other site 572480004193 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 572480004194 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 572480004195 substrate binding site [chemical binding]; other site 572480004196 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 572480004197 substrate binding site [chemical binding]; other site 572480004198 ligand binding site [chemical binding]; other site 572480004199 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 572480004200 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 572480004201 active site 572480004202 motif I; other site 572480004203 motif II; other site 572480004204 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 572480004205 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 572480004206 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 572480004207 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 572480004208 dimer interface [polypeptide binding]; other site 572480004209 conserved gate region; other site 572480004210 putative PBP binding loops; other site 572480004211 ABC-ATPase subunit interface; other site 572480004212 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 572480004213 dimer interface [polypeptide binding]; other site 572480004214 conserved gate region; other site 572480004215 putative PBP binding loops; other site 572480004216 ABC-ATPase subunit interface; other site 572480004217 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572480004218 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572480004219 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 572480004220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004221 Walker A/P-loop; other site 572480004222 ATP binding site [chemical binding]; other site 572480004223 Q-loop/lid; other site 572480004224 ABC transporter signature motif; other site 572480004225 Walker B; other site 572480004226 D-loop; other site 572480004227 H-loop/switch region; other site 572480004228 TOBE domain; Region: TOBE_2; pfam08402 572480004229 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 572480004230 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 572480004231 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 572480004232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480004233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480004234 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 572480004235 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 572480004236 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 572480004237 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 572480004238 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 572480004239 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 572480004240 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 572480004241 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 572480004242 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 572480004243 putative substrate-binding site; other site 572480004244 nickel binding site [ion binding]; other site 572480004245 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 572480004246 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 572480004247 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 572480004248 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 572480004249 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 572480004250 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 572480004251 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 572480004252 nickel binding site [ion binding]; other site 572480004253 putative substrate-binding site; other site 572480004254 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 572480004255 Acylphosphatase; Region: Acylphosphatase; pfam00708 572480004256 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 572480004257 HypF finger; Region: zf-HYPF; pfam07503 572480004258 HypF finger; Region: zf-HYPF; pfam07503 572480004259 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 572480004260 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 572480004261 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480004262 dimer interface [polypeptide binding]; other site 572480004263 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480004264 putative CheW interface [polypeptide binding]; other site 572480004265 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 572480004266 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 572480004267 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 572480004268 DsrE/DsrF-like family; Region: DrsE; cl00672 572480004269 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 572480004270 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480004271 putative substrate translocation pore; other site 572480004272 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; cl00252 572480004273 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 572480004274 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 572480004275 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 572480004276 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 572480004277 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 572480004278 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 572480004279 catalytic triad [active] 572480004280 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 572480004281 dimerization interface [polypeptide binding]; other site 572480004282 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 572480004283 ATP binding site [chemical binding]; other site 572480004284 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 572480004285 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 572480004286 Cache domain; Region: Cache_1; pfam02743 572480004287 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480004288 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480004289 metal binding site [ion binding]; metal-binding site 572480004290 active site 572480004291 I-site; other site 572480004292 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 572480004293 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 572480004294 putative ligand binding site [chemical binding]; other site 572480004295 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572480004296 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 572480004297 TM-ABC transporter signature motif; other site 572480004298 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 572480004299 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 572480004300 TM-ABC transporter signature motif; other site 572480004301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 572480004302 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 572480004303 Walker A/P-loop; other site 572480004304 ATP binding site [chemical binding]; other site 572480004305 Q-loop/lid; other site 572480004306 ABC transporter signature motif; other site 572480004307 Walker B; other site 572480004308 D-loop; other site 572480004309 H-loop/switch region; other site 572480004310 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 572480004311 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 572480004312 Walker A/P-loop; other site 572480004313 ATP binding site [chemical binding]; other site 572480004314 Q-loop/lid; other site 572480004315 ABC transporter signature motif; other site 572480004316 Walker B; other site 572480004317 D-loop; other site 572480004318 H-loop/switch region; other site 572480004319 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; cl14632 572480004320 active site 572480004321 metal binding site [ion binding]; metal-binding site 572480004322 primosome assembly protein PriA; Validated; Region: PRK05580 572480004323 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 572480004324 ATP binding site [chemical binding]; other site 572480004325 putative Mg++ binding site [ion binding]; other site 572480004326 helicase superfamily c-terminal domain; Region: HELICc; smart00490 572480004327 ATP-binding site [chemical binding]; other site 572480004328 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 572480004329 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 572480004330 putative trimer interface [polypeptide binding]; other site 572480004331 putative CoA binding site [chemical binding]; other site 572480004332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480004333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480004334 metal binding site [ion binding]; metal-binding site 572480004335 active site 572480004336 I-site; other site 572480004337 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572480004338 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480004339 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480004340 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572480004341 Walker A/P-loop; other site 572480004342 ATP binding site [chemical binding]; other site 572480004343 Q-loop/lid; other site 572480004344 ABC transporter signature motif; other site 572480004345 Walker B; other site 572480004346 D-loop; other site 572480004347 H-loop/switch region; other site 572480004348 tRNA (guanine-N(7)-)-methyltransferase; Provisional; Region: PRK14121 572480004349 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; cl00065 572480004350 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 572480004351 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 572480004352 Interdomain contacts; other site 572480004353 Cytokine receptor motif; other site 572480004354 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 572480004355 Interdomain contacts; other site 572480004356 Cytokine receptor motif; other site 572480004357 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572480004358 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 572480004359 RNA binding surface [nucleotide binding]; other site 572480004360 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572480004361 active site 572480004362 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 572480004363 agmatinase; Region: agmatinase; TIGR01230 572480004364 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 572480004365 putative active site [active] 572480004366 Mn binding site [ion binding]; other site 572480004367 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 572480004368 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; cl00246 572480004369 FAD binding site [chemical binding]; other site 572480004370 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 572480004371 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572480004372 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 572480004373 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 572480004374 inhibitor-cofactor binding pocket; inhibition site 572480004375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480004376 catalytic residue [active] 572480004377 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 572480004378 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 572480004379 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 572480004380 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572480004381 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572480004382 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572480004383 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 572480004384 DNA binding residues [nucleotide binding] 572480004385 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 572480004386 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 572480004387 substrate binding site [chemical binding]; other site 572480004388 tartrate dehydrogenase; Region: TTC; TIGR02089 572480004389 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 572480004390 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572480004391 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572480004392 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572480004393 Walker A/P-loop; other site 572480004394 ATP binding site [chemical binding]; other site 572480004395 Q-loop/lid; other site 572480004396 ABC transporter signature motif; other site 572480004397 Walker B; other site 572480004398 D-loop; other site 572480004399 H-loop/switch region; other site 572480004400 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 572480004401 dimer interface [polypeptide binding]; other site 572480004402 conserved gate region; other site 572480004403 putative PBP binding loops; other site 572480004404 ABC-ATPase subunit interface; other site 572480004405 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480004406 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 572480004407 substrate binding pocket [chemical binding]; other site 572480004408 membrane-bound complex binding site; other site 572480004409 hinge residues; other site 572480004410 dipeptidase PepV; Reviewed; Region: PRK07318 572480004411 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 572480004412 active site 572480004413 metal binding site [ion binding]; metal-binding site 572480004414 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 572480004415 HIT family signature motif; other site 572480004416 catalytic residue [active] 572480004417 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 572480004418 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 572480004419 GAF domain; Region: GAF; pfam01590 572480004420 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572480004421 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480004422 Zn2+ binding site [ion binding]; other site 572480004423 Mg2+ binding site [ion binding]; other site 572480004424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480004425 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 572480004426 30S ribosomal protein S13; Region: bact_S13; TIGR03631 572480004427 30S ribosomal protein S11; Validated; Region: PRK05309 572480004428 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 572480004429 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 572480004430 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 572480004431 RNA binding surface [nucleotide binding]; other site 572480004432 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 572480004433 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 572480004434 alphaNTD homodimer interface [polypeptide binding]; other site 572480004435 alphaNTD - beta interaction site [polypeptide binding]; other site 572480004436 alphaNTD - beta' interaction site [polypeptide binding]; other site 572480004437 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 572480004438 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 572480004439 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 572480004440 indole-3-acetamide amidohydrolase; Region: PLN02722 572480004441 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 572480004442 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 572480004443 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 572480004444 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 572480004445 active site 572480004446 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 572480004447 Predicted transcriptional regulator [Transcription]; Region: COG3655 572480004448 salt bridge; other site 572480004449 non-specific DNA binding site [nucleotide binding]; other site 572480004450 sequence-specific DNA binding site [nucleotide binding]; other site 572480004451 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 572480004452 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 572480004453 PemK-like protein; Region: PemK; pfam02452 572480004454 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 572480004455 Haem-binding domain; Region: Haem_bd; pfam14376 572480004456 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480004457 Cupin domain; Region: Cupin_2; pfam07883 572480004458 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 572480004459 GIY-YIG motif/motif A; other site 572480004460 putative active site [active] 572480004461 putative metal binding site [ion binding]; other site 572480004462 flavodoxin FldA; Validated; Region: PRK09267 572480004463 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 572480004464 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 572480004465 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 572480004466 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572480004467 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 572480004468 active site 572480004469 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 572480004470 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 572480004471 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 572480004472 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 572480004473 active site residue [active] 572480004474 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 572480004475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480004476 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 572480004477 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 572480004478 active site 572480004479 metal binding site [ion binding]; metal-binding site 572480004480 Protein of unknown function, DUF393; Region: DUF393; cl01136 572480004481 Cupin domain; Region: Cupin_2; pfam07883 572480004482 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 572480004483 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 572480004484 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 572480004485 active site 572480004486 purine riboside binding site [chemical binding]; other site 572480004487 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 572480004488 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 572480004489 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480004490 Protein of unknown function, DUF479; Region: DUF479; cl01203 572480004491 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 572480004492 Domain of unknown function (DUF386); Region: DUF386; cl01047 572480004493 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 572480004494 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572480004495 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572480004496 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480004497 ABC transporter; Region: ABC_tran_2; pfam12848 572480004498 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480004499 Putative phosphatase (DUF442); Region: DUF442; cl17385 572480004500 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 572480004501 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 572480004502 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 572480004503 hypothetical protein; Reviewed; Region: PRK00024 572480004504 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 572480004505 MPN+ (JAMM) motif; other site 572480004506 Zinc-binding site [ion binding]; other site 572480004507 PemK-like protein; Region: PemK; cl00995 572480004508 HsdM N-terminal domain; Region: HsdM_N; pfam12161 572480004509 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 572480004510 Methyltransferase domain; Region: Methyltransf_26; pfam13659 572480004511 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572480004512 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572480004513 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572480004514 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 572480004515 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572480004516 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 572480004517 ATP binding site [chemical binding]; other site 572480004518 putative Mg++ binding site [ion binding]; other site 572480004519 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 572480004520 nucleotide binding region [chemical binding]; other site 572480004521 ATP-binding site [chemical binding]; other site 572480004522 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 572480004523 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 572480004524 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 572480004525 ATP binding site [chemical binding]; other site 572480004526 substrate interface [chemical binding]; other site 572480004527 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 572480004528 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572480004529 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480004530 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 572480004531 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572480004532 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480004533 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 572480004534 IMP binding site; other site 572480004535 dimer interface [polypeptide binding]; other site 572480004536 partial ornithine binding site; other site 572480004537 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 572480004538 Archaeal ATPase; Region: Arch_ATPase; pfam01637 572480004539 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 572480004540 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 572480004541 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 572480004542 PGAP1-like protein; Region: PGAP1; pfam07819 572480004543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004544 Walker A/P-loop; other site 572480004545 ATP binding site [chemical binding]; other site 572480004546 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 572480004547 Sel1-like repeats; Region: SEL1; smart00671 572480004548 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 572480004549 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 572480004550 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 572480004551 RTX toxin acyltransferase family; Region: HlyC; pfam02794 572480004552 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480004553 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 572480004554 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 572480004555 putative active site [active] 572480004556 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480004557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004558 Walker A/P-loop; other site 572480004559 ATP binding site [chemical binding]; other site 572480004560 Q-loop/lid; other site 572480004561 ABC transporter signature motif; other site 572480004562 Walker B; other site 572480004563 D-loop; other site 572480004564 H-loop/switch region; other site 572480004565 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 572480004566 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480004567 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480004568 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 572480004569 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 572480004570 active site 572480004571 DNA binding site [nucleotide binding] 572480004572 Int/Topo IB signature motif; other site 572480004573 Methyltransferase domain; Region: Methyltransf_11; pfam08241 572480004574 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 572480004575 active site 572480004576 Int/Topo IB signature motif; other site 572480004577 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004578 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 572480004579 ATP binding site [chemical binding]; other site 572480004580 Mg2+ binding site [ion binding]; other site 572480004581 G-X-G motif; other site 572480004582 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 572480004583 Response regulator receiver domain; Region: Response_reg; pfam00072 572480004584 active site 572480004585 phosphorylation site [posttranslational modification] 572480004586 intermolecular recognition site; other site 572480004587 dimerization interface [polypeptide binding]; other site 572480004588 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 572480004589 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004590 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004591 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004592 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004593 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004594 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 572480004595 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480004596 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 572480004597 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480004598 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480004599 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 572480004600 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480004601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004602 Walker A/P-loop; other site 572480004603 ATP binding site [chemical binding]; other site 572480004604 Q-loop/lid; other site 572480004605 ABC transporter signature motif; other site 572480004606 Walker B; other site 572480004607 D-loop; other site 572480004608 H-loop/switch region; other site 572480004609 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480004610 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; cl17355 572480004611 DNA binding site [nucleotide binding] 572480004612 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480004613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 572480004614 Histidine kinase; Region: HisKA_2; pfam07568 572480004615 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 572480004616 ATP binding site [chemical binding]; other site 572480004617 Mg2+ binding site [ion binding]; other site 572480004618 G-X-G motif; other site 572480004619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480004620 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 572480004621 active site 572480004622 phosphorylation site [posttranslational modification] 572480004623 intermolecular recognition site; other site 572480004624 dimerization interface [polypeptide binding]; other site 572480004625 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 572480004626 DNA binding site [nucleotide binding] 572480004627 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 572480004628 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 572480004629 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 572480004630 haemagglutination activity domain; Region: Haemagg_act; pfam05860 572480004631 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 572480004632 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 572480004633 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 572480004634 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 572480004635 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 572480004636 LrgA family; Region: LrgA; pfam03788 572480004637 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 572480004638 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 572480004639 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 572480004640 active site 572480004641 metal binding site [ion binding]; metal-binding site 572480004642 DNA binding site [nucleotide binding] 572480004643 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 572480004644 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 572480004645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004646 Walker A/P-loop; other site 572480004647 ATP binding site [chemical binding]; other site 572480004648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004649 ABC transporter signature motif; other site 572480004650 Walker B; other site 572480004651 D-loop; other site 572480004652 H-loop/switch region; other site 572480004653 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 572480004654 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 572480004655 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 572480004656 non-specific DNA binding site [nucleotide binding]; other site 572480004657 salt bridge; other site 572480004658 sequence-specific DNA binding site [nucleotide binding]; other site 572480004659 PemK-like protein; Region: PemK; pfam02452 572480004660 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 572480004661 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 572480004662 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 572480004663 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 572480004664 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 572480004665 Ligand binding site; other site 572480004666 metal-binding site 572480004667 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 572480004668 XdhC Rossmann domain; Region: XdhC_C; pfam13478 572480004669 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 572480004670 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 572480004671 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572480004672 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 572480004673 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572480004674 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572480004675 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 572480004676 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 572480004677 catalytic loop [active] 572480004678 iron binding site [ion binding]; other site 572480004679 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 572480004680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480004681 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480004682 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 572480004683 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572480004684 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572480004685 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 572480004686 Hemerythrin-like domain; Region: Hr-like; cd12108 572480004687 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 572480004688 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 572480004689 ligand binding site [chemical binding]; other site 572480004690 flexible hinge region; other site 572480004691 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 572480004692 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 572480004693 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 572480004694 non-specific DNA binding site [nucleotide binding]; other site 572480004695 salt bridge; other site 572480004696 sequence-specific DNA binding site [nucleotide binding]; other site 572480004697 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 572480004698 active site 572480004699 dimer interface [polypeptide binding]; other site 572480004700 metal binding site [ion binding]; metal-binding site 572480004701 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572480004702 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572480004703 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 572480004704 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572480004705 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 572480004706 FeS/SAM binding site; other site 572480004707 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 572480004708 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572480004709 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 572480004710 Walker A motif; other site 572480004711 ATP binding site [chemical binding]; other site 572480004712 Walker B motif; other site 572480004713 arginine finger; other site 572480004714 Peptidase family M41; Region: Peptidase_M41; pfam01434 572480004715 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 572480004716 MPT binding site; other site 572480004717 trimer interface [polypeptide binding]; other site 572480004718 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572480004719 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 572480004720 transmembrane helices; other site 572480004721 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 572480004722 dimer interface [polypeptide binding]; other site 572480004723 catalytic residues [active] 572480004724 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 572480004725 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480004726 Walker A/P-loop; other site 572480004727 ATP binding site [chemical binding]; other site 572480004728 Q-loop/lid; other site 572480004729 ABC transporter signature motif; other site 572480004730 Walker B; other site 572480004731 D-loop; other site 572480004732 H-loop/switch region; other site 572480004733 Smr domain; Region: Smr; pfam01713 572480004734 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572480004735 Conserved TM helix; Region: TM_helix; pfam05552 572480004736 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572480004737 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 572480004738 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 572480004739 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 572480004740 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 572480004741 metal binding site [ion binding]; metal-binding site 572480004742 dimer interface [polypeptide binding]; other site 572480004743 ORF6N domain; Region: ORF6N; pfam10543 572480004744 AAA domain; Region: AAA_33; pfam13671 572480004745 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 572480004746 active site 572480004747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 572480004748 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 572480004749 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 572480004750 NAD(P) binding site [chemical binding]; other site 572480004751 LDH/MDH dimer interface [polypeptide binding]; other site 572480004752 substrate binding site [chemical binding]; other site 572480004753 transmembrane helices; other site 572480004754 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 572480004755 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572480004756 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480004757 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 572480004758 active site 572480004759 phosphorylation site [posttranslational modification] 572480004760 intermolecular recognition site; other site 572480004761 dimerization interface [polypeptide binding]; other site 572480004762 DNA binding site [nucleotide binding] 572480004763 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480004764 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 572480004765 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 572480004766 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004767 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 572480004768 dimer interface [polypeptide binding]; other site 572480004769 phosphorylation site [posttranslational modification] 572480004770 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 572480004771 ATP binding site [chemical binding]; other site 572480004772 Mg2+ binding site [ion binding]; other site 572480004773 G-X-G motif; other site 572480004774 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 572480004775 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 572480004776 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 572480004777 molybdopterin cofactor binding site [chemical binding]; other site 572480004778 substrate binding site [chemical binding]; other site 572480004779 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 572480004780 molybdopterin cofactor binding site; other site 572480004781 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 572480004782 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 572480004783 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 572480004784 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 572480004785 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 572480004786 aspartate racemase; Region: asp_race; TIGR00035 572480004787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 572480004788 MOSC domain; Region: MOSC; pfam03473 572480004789 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 572480004790 Predicted transcriptional regulators [Transcription]; Region: COG1733 572480004791 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572480004792 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480004793 EamA-like transporter family; Region: EamA; pfam00892 572480004794 EamA-like transporter family; Region: EamA; pfam00892 572480004795 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 572480004796 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 572480004797 dimer interface [polypeptide binding]; other site 572480004798 FMN binding site [chemical binding]; other site 572480004799 NADPH bind site [chemical binding]; other site 572480004800 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572480004801 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 572480004802 putative NAD(P) binding site [chemical binding]; other site 572480004803 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572480004804 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 572480004805 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 572480004806 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 572480004807 active site 572480004808 FMN binding site [chemical binding]; other site 572480004809 substrate binding site [chemical binding]; other site 572480004810 homotetramer interface [polypeptide binding]; other site 572480004811 catalytic residue [active] 572480004812 EamA-like transporter family; Region: EamA; cl17759 572480004813 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480004814 EamA-like transporter family; Region: EamA; pfam00892 572480004815 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 572480004816 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480004817 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572480004818 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572480004819 dimer interface [polypeptide binding]; other site 572480004820 active site 572480004821 metal binding site [ion binding]; metal-binding site 572480004822 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 572480004823 dimer interface [polypeptide binding]; other site 572480004824 FMN binding site [chemical binding]; other site 572480004825 Nitrate and nitrite sensing; Region: NIT; pfam08376 572480004826 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480004827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480004828 dimer interface [polypeptide binding]; other site 572480004829 putative CheW interface [polypeptide binding]; other site 572480004830 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 572480004831 Membrane transport protein; Region: Mem_trans; cl09117 572480004832 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 572480004833 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 572480004834 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 572480004835 Ligand Binding Site [chemical binding]; other site 572480004836 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480004837 active site residue [active] 572480004838 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 572480004839 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480004840 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480004841 ABC transporter; Region: ABC_tran_2; pfam12848 572480004842 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480004843 Catalytic domain of Protein Kinases; Region: PKc; cd00180 572480004844 active site 572480004845 ATP binding site [chemical binding]; other site 572480004846 substrate binding site [chemical binding]; other site 572480004847 activation loop (A-loop); other site 572480004848 AAA ATPase domain; Region: AAA_16; pfam13191 572480004849 Predicted ATPase [General function prediction only]; Region: COG3899 572480004850 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 572480004851 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 572480004852 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480004853 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480004854 metal binding site [ion binding]; metal-binding site 572480004855 active site 572480004856 I-site; other site 572480004857 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 572480004858 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 572480004859 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 572480004860 nucleotide binding pocket [chemical binding]; other site 572480004861 K-X-D-G motif; other site 572480004862 catalytic site [active] 572480004863 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 572480004864 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 572480004865 Dimer interface [polypeptide binding]; other site 572480004866 BRCT sequence motif; other site 572480004867 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480004868 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 572480004869 S-adenosylmethionine binding site [chemical binding]; other site 572480004870 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 572480004871 Ligand Binding Site [chemical binding]; other site 572480004872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480004873 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 572480004874 active site 572480004875 phosphorylation site [posttranslational modification] 572480004876 intermolecular recognition site; other site 572480004877 dimerization interface [polypeptide binding]; other site 572480004878 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 572480004879 DNA binding site [nucleotide binding] 572480004880 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 572480004881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004882 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 572480004883 dimer interface [polypeptide binding]; other site 572480004884 phosphorylation site [posttranslational modification] 572480004885 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 572480004886 ATP binding site [chemical binding]; other site 572480004887 Mg2+ binding site [ion binding]; other site 572480004888 G-X-G motif; other site 572480004889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572480004890 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 572480004891 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572480004892 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 572480004893 Domain of unknown function DUF302; Region: DUF302; cl01364 572480004894 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 572480004895 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 572480004896 metal binding site [ion binding]; metal-binding site 572480004897 Cache domain; Region: Cache_1; pfam02743 572480004898 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 572480004899 dimerization interface [polypeptide binding]; other site 572480004900 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480004901 Zn2+ binding site [ion binding]; other site 572480004902 Mg2+ binding site [ion binding]; other site 572480004903 ResB-like family; Region: ResB; pfam05140 572480004904 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 572480004905 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 572480004906 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480004907 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 572480004908 S-adenosylmethionine binding site [chemical binding]; other site 572480004909 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480004910 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480004911 metal binding site [ion binding]; metal-binding site 572480004912 active site 572480004913 I-site; other site 572480004914 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 572480004915 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 572480004916 dinuclear metal binding motif [ion binding]; other site 572480004917 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480004918 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 572480004919 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 572480004920 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 572480004921 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 572480004922 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 572480004923 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 572480004924 S-adenosylmethionine binding site [chemical binding]; other site 572480004925 Protein of unknown function (DUF1365); Region: DUF1365; cl17838 572480004926 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 572480004927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480004928 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 572480004929 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 572480004930 MFS/sugar transport protein; Region: MFS_2; pfam13347 572480004931 SnoaL-like domain; Region: SnoaL_2; pfam12680 572480004932 short chain dehydrogenase; Provisional; Region: PRK06101 572480004933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480004934 NAD(P) binding site [chemical binding]; other site 572480004935 active site 572480004936 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 572480004937 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 572480004938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480004939 catalytic residue [active] 572480004940 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480004941 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 572480004942 substrate binding pocket [chemical binding]; other site 572480004943 membrane-bound complex binding site; other site 572480004944 hinge residues; other site 572480004945 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 572480004946 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480004947 substrate binding pocket [chemical binding]; other site 572480004948 membrane-bound complex binding site; other site 572480004949 hinge residues; other site 572480004950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480004951 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 572480004952 dimer interface [polypeptide binding]; other site 572480004953 phosphorylation site [posttranslational modification] 572480004954 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 572480004955 ATP binding site [chemical binding]; other site 572480004956 G-X-G motif; other site 572480004957 chaperone protein DnaJ; Provisional; Region: PRK10767 572480004958 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 572480004959 HSP70 interaction site [polypeptide binding]; other site 572480004960 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 572480004961 Zn binding sites [ion binding]; other site 572480004962 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 572480004963 dimer interface [polypeptide binding]; other site 572480004964 recombination protein RecR; Reviewed; Region: recR; PRK00076 572480004965 RecR protein; Region: RecR; pfam02132 572480004966 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 572480004967 putative active site [active] 572480004968 putative metal-binding site [ion binding]; other site 572480004969 tetramer interface [polypeptide binding]; other site 572480004970 PAS domain; Region: PAS_9; pfam13426 572480004971 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; cl00080 572480004972 dimer interface [polypeptide binding]; other site 572480004973 phosphorylation site [posttranslational modification] 572480004974 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 572480004975 ATP binding site [chemical binding]; other site 572480004976 G-X-G motif; other site 572480004977 dUTPase; Region: dUTPase_2; pfam08761 572480004978 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 572480004979 active site 572480004980 homodimer interface [polypeptide binding]; other site 572480004981 metal binding site [ion binding]; metal-binding site 572480004982 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 572480004983 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 572480004984 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572480004985 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572480004986 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 572480004987 ligand binding site [chemical binding]; other site 572480004988 flexible hinge region; other site 572480004989 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 572480004990 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 572480004991 trimer interface [polypeptide binding]; other site 572480004992 putative metal binding site [ion binding]; other site 572480004993 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 572480004994 active site 572480004995 Zn binding site [ion binding]; other site 572480004996 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480004997 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572480004998 Helix-hairpin-helix motif; Region: HHH; pfam00633 572480004999 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480005000 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 572480005001 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 572480005002 metal binding site [ion binding]; metal-binding site 572480005003 dimer interface [polypeptide binding]; other site 572480005004 argininosuccinate synthase; Provisional; Region: PRK13820 572480005005 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 572480005006 ANP binding site [chemical binding]; other site 572480005007 Substrate Binding Site II [chemical binding]; other site 572480005008 Substrate Binding Site I [chemical binding]; other site 572480005009 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 572480005010 RNA binding surface [nucleotide binding]; other site 572480005011 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 572480005012 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572480005013 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 572480005014 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 572480005015 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 572480005016 Walker A/P-loop; other site 572480005017 ATP binding site [chemical binding]; other site 572480005018 Q-loop/lid; other site 572480005019 ABC transporter signature motif; other site 572480005020 Walker B; other site 572480005021 D-loop; other site 572480005022 H-loop/switch region; other site 572480005023 Response regulator receiver domain; Region: Response_reg; pfam00072 572480005024 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 572480005025 active site 572480005026 phosphorylation site [posttranslational modification] 572480005027 intermolecular recognition site; other site 572480005028 dimerization interface [polypeptide binding]; other site 572480005029 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480005030 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480005031 metal binding site [ion binding]; metal-binding site 572480005032 active site 572480005033 I-site; other site 572480005034 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 572480005035 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 572480005036 Ligand binding site; other site 572480005037 oligomer interface; other site 572480005038 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 572480005039 PAS domain; Region: PAS_9; pfam13426 572480005040 putative active site [active] 572480005041 heme pocket [chemical binding]; other site 572480005042 PAS domain; Region: PAS_9; pfam13426 572480005043 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 572480005044 putative active site [active] 572480005045 heme pocket [chemical binding]; other site 572480005046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480005047 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 572480005048 dimer interface [polypeptide binding]; other site 572480005049 phosphorylation site [posttranslational modification] 572480005050 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 572480005051 ATP binding site [chemical binding]; other site 572480005052 Mg2+ binding site [ion binding]; other site 572480005053 G-X-G motif; other site 572480005054 DNA polymerase I; Provisional; Region: PRK05755 572480005055 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 572480005056 active site 572480005057 metal binding site 1 [ion binding]; metal-binding site 572480005058 putative 5' ssDNA interaction site; other site 572480005059 metal binding site 3; metal-binding site 572480005060 metal binding site 2 [ion binding]; metal-binding site 572480005061 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 572480005062 putative DNA binding site [nucleotide binding]; other site 572480005063 putative metal binding site [ion binding]; other site 572480005064 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 572480005065 active site 572480005066 catalytic site [active] 572480005067 substrate binding site [chemical binding]; other site 572480005068 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 572480005069 active site 572480005070 DNA binding site [nucleotide binding] 572480005071 catalytic site [active] 572480005072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480005073 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 572480005074 active site 572480005075 phosphorylation site [posttranslational modification] 572480005076 intermolecular recognition site; other site 572480005077 dimerization interface [polypeptide binding]; other site 572480005078 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480005079 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 572480005080 Response regulator receiver domain; Region: Response_reg; pfam00072 572480005081 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 572480005082 active site 572480005083 phosphorylation site [posttranslational modification] 572480005084 intermolecular recognition site; other site 572480005085 dimerization interface [polypeptide binding]; other site 572480005086 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 572480005087 PAS domain; Region: PAS_9; pfam13426 572480005088 putative active site [active] 572480005089 heme pocket [chemical binding]; other site 572480005090 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 572480005091 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 572480005092 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572480005093 Cysteine-rich domain; Region: CCG; pfam02754 572480005094 Cysteine-rich domain; Region: CCG; pfam02754 572480005095 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 572480005096 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 572480005097 FeS/SAM binding site; other site 572480005098 HemN C-terminal domain; Region: HemN_C; pfam06969 572480005099 ornithine carbamoyltransferase; Provisional; Region: PRK00779 572480005100 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 572480005101 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 572480005102 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 572480005103 ATP cone domain; Region: ATP-cone; pfam03477 572480005104 Class III ribonucleotide reductase; Region: RNR_III; cd01675 572480005105 effector binding site; other site 572480005106 active site 572480005107 Zn binding site [ion binding]; other site 572480005108 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 572480005109 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 572480005110 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 572480005111 FeS/SAM binding site; other site 572480005112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480005113 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 572480005114 active site 572480005115 phosphorylation site [posttranslational modification] 572480005116 intermolecular recognition site; other site 572480005117 dimerization interface [polypeptide binding]; other site 572480005118 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 572480005119 DNA binding site [nucleotide binding] 572480005120 potential frameshift: common BLAST hit: gi|157737482|ref|YP_001490165.1| two-component sensor histidine kinase 572480005121 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 572480005122 ATP binding site [chemical binding]; other site 572480005123 Mg2+ binding site [ion binding]; other site 572480005124 G-X-G motif; other site 572480005125 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 572480005126 PAS domain; Region: PAS_9; pfam13426 572480005127 putative active site [active] 572480005128 heme pocket [chemical binding]; other site 572480005129 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 572480005130 dimer interface [polypeptide binding]; other site 572480005131 active site 572480005132 Schiff base residues; other site 572480005133 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 572480005134 dimerization interface [polypeptide binding]; other site 572480005135 active site 572480005136 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 572480005137 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 572480005138 S-adenosylmethionine binding site [chemical binding]; other site 572480005139 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 572480005140 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 572480005141 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572480005142 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572480005143 Helix-hairpin-helix motif; Region: HHH; pfam00633 572480005144 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 572480005145 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 572480005146 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 572480005147 active site 572480005148 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 572480005149 non-specific DNA binding site [nucleotide binding]; other site 572480005150 salt bridge; other site 572480005151 sequence-specific DNA binding site [nucleotide binding]; other site 572480005152 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 572480005153 active site 572480005154 Int/Topo IB signature motif; other site 572480005155 DNA binding site [nucleotide binding] 572480005156 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 572480005157 Active Sites [active] 572480005158 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 572480005159 catalytic residue [active] 572480005160 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 572480005161 ORF6N domain; Region: ORF6N; pfam10543 572480005162 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 572480005163 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 572480005164 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 572480005165 active site 572480005166 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 572480005167 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 572480005168 active site 572480005169 substrate-binding site [chemical binding]; other site 572480005170 metal-binding site [ion binding] 572480005171 ATP binding site [chemical binding]; other site 572480005172 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 572480005173 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 572480005174 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572480005175 active site 572480005176 catalytic residues [active] 572480005177 metal binding site [ion binding]; metal-binding site 572480005178 homodimer binding site [polypeptide binding]; other site 572480005179 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 572480005180 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 572480005181 carboxyltransferase (CT) interaction site; other site 572480005182 biotinylation site [posttranslational modification]; other site 572480005183 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 572480005184 Predicted transcriptional regulator [Transcription]; Region: COG2932 572480005185 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 572480005186 Catalytic site [active] 572480005187 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572480005188 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 572480005189 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 572480005190 active site 572480005191 HIGH motif; other site 572480005192 KMSKS motif; other site 572480005193 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 572480005194 anticodon binding site; other site 572480005195 tRNA binding surface [nucleotide binding]; other site 572480005196 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 572480005197 dimer interface [polypeptide binding]; other site 572480005198 putative tRNA-binding site [nucleotide binding]; other site 572480005199 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 572480005200 active site 572480005201 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 572480005202 Walker A motif; other site 572480005203 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 572480005204 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 572480005205 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572480005206 catalytic residue [active] 572480005207 YGGT family; Region: YGGT; pfam02325 572480005208 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 572480005209 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480005210 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480005211 active site 572480005212 KMSKS motif; other site 572480005213 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572480005214 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572480005215 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572480005216 hypothetical protein; Provisional; Region: PRK08445 572480005217 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 572480005218 FeS/SAM binding site; other site 572480005219 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 572480005220 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572480005221 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572480005222 Surface antigen; Region: Bac_surface_Ag; pfam01103 572480005223 prephenate dehydrogenase; Validated; Region: PRK08507 572480005224 Prephenate dehydrogenase; Region: PDH; pfam02153 572480005225 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 572480005226 dihydropteroate synthase; Region: DHPS; TIGR01496 572480005227 substrate binding pocket [chemical binding]; other site 572480005228 dimer interface [polypeptide binding]; other site 572480005229 inhibitor binding site; inhibition site 572480005230 DNA polymerase III subunit delta'; Validated; Region: PRK08485 572480005231 DNA replication regulator; Region: HobA; pfam12163 572480005232 aspartate kinase; Reviewed; Region: PRK06635 572480005233 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 572480005234 putative catalytic residues [active] 572480005235 putative nucleotide binding site [chemical binding]; other site 572480005236 putative aspartate binding site [chemical binding]; other site 572480005237 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 572480005238 putative allosteric regulatory site; other site 572480005239 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 572480005240 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 572480005241 putative active site [active] 572480005242 Ap4A binding site [chemical binding]; other site 572480005243 nudix motif; other site 572480005244 putative metal binding site [ion binding]; other site 572480005245 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 572480005246 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 572480005247 FeS/SAM binding site; other site 572480005248 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 572480005249 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 572480005250 S-adenosylmethionine binding site [chemical binding]; other site 572480005251 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 572480005252 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 572480005253 active site 572480005254 Zn binding site [ion binding]; other site 572480005255 Protein of unknown function (DUF904); Region: DUF904; pfam06005 572480005256 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 572480005257 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 572480005258 active site 572480005259 DNA binding site [nucleotide binding] 572480005260 Int/Topo IB signature motif; other site 572480005261 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 572480005262 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 572480005263 Protein of unknown function (DUF770); Region: DUF770; pfam05591 572480005264 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 572480005265 Protein of unknown function (DUF877); Region: DUF877; pfam05943 572480005266 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 572480005267 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 572480005268 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 572480005269 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 572480005270 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 572480005271 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 572480005272 Walker A motif; other site 572480005273 ATP binding site [chemical binding]; other site 572480005274 Walker B motif; other site 572480005275 arginine finger; other site 572480005276 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 572480005277 Walker A motif; other site 572480005278 ATP binding site [chemical binding]; other site 572480005279 Walker B motif; other site 572480005280 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480005281 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 572480005282 phosphopeptide binding site; other site 572480005283 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 572480005284 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 572480005285 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 572480005286 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 572480005287 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 572480005288 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 572480005289 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 572480005290 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 572480005291 Protein phosphatase 2C; Region: PP2C; pfam00481 572480005292 active site 572480005293 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 572480005294 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 572480005295 active site 572480005296 ATP binding site [chemical binding]; other site 572480005297 substrate binding site [chemical binding]; other site 572480005298 activation loop (A-loop); other site 572480005299 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 572480005300 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 572480005301 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 572480005302 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 572480005303 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 572480005304 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 572480005305 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 572480005306 binding surface 572480005307 TPR motif; other site 572480005308 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 572480005309 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 572480005310 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 572480005311 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 572480005312 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 572480005313 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 572480005314 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 572480005315 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 572480005316 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 572480005317 active site 572480005318 phosphorylation site [posttranslational modification] 572480005319 intermolecular recognition site; other site 572480005320 dimerization interface [polypeptide binding]; other site 572480005321 CheB methylesterase; Region: CheB_methylest; pfam01339 572480005322 CheD chemotactic sensory transduction; Region: CheD; cl00810 572480005323 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 572480005324 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 572480005325 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 572480005326 chemotaxis protein CheA; Provisional; Region: PRK10547 572480005327 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 572480005328 putative binding surface; other site 572480005329 active site 572480005330 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 572480005331 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 572480005332 ATP binding site [chemical binding]; other site 572480005333 Mg2+ binding site [ion binding]; other site 572480005334 G-X-G motif; other site 572480005335 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 572480005336 Response regulator receiver domain; Region: Response_reg; pfam00072 572480005337 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 572480005338 active site 572480005339 phosphorylation site [posttranslational modification] 572480005340 intermolecular recognition site; other site 572480005341 dimerization interface [polypeptide binding]; other site 572480005342 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 572480005343 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 572480005344 oligomer interface [polypeptide binding]; other site 572480005345 RNA binding site [nucleotide binding]; other site 572480005346 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 572480005347 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 572480005348 oligomer interface [polypeptide binding]; other site 572480005349 RNA binding site [nucleotide binding]; other site 572480005350 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 572480005351 putative nucleic acid binding region [nucleotide binding]; other site 572480005352 G-X-X-G motif; other site 572480005353 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 572480005354 RNA binding site [nucleotide binding]; other site 572480005355 domain interface; other site 572480005356 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480005357 active site 572480005358 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 572480005359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 572480005360 Organic solvent tolerance protein; Region: OstA_C; pfam04453 572480005361 RDD family; Region: RDD; pfam06271 572480005362 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 572480005363 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 572480005364 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 572480005365 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 572480005366 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 572480005367 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 572480005368 active site 572480005369 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 572480005370 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572480005371 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 572480005372 GTP-binding protein Der; Reviewed; Region: PRK00093 572480005373 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 572480005374 G1 box; other site 572480005375 GTP/Mg2+ binding site [chemical binding]; other site 572480005376 Switch I region; other site 572480005377 G2 box; other site 572480005378 Switch II region; other site 572480005379 G3 box; other site 572480005380 G4 box; other site 572480005381 G5 box; other site 572480005382 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 572480005383 G1 box; other site 572480005384 GTP/Mg2+ binding site [chemical binding]; other site 572480005385 Switch I region; other site 572480005386 G2 box; other site 572480005387 G3 box; other site 572480005388 Switch II region; other site 572480005389 G4 box; other site 572480005390 G5 box; other site 572480005391 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 572480005392 30S subunit binding site; other site 572480005393 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 572480005394 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 572480005395 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 572480005396 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 572480005397 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 572480005398 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 572480005399 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 572480005400 trimer interface [polypeptide binding]; other site 572480005401 active site 572480005402 UDP-GlcNAc binding site [chemical binding]; other site 572480005403 lipid binding site [chemical binding]; lipid-binding site 572480005404 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 572480005405 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 572480005406 putative valine binding site [chemical binding]; other site 572480005407 dimer interface [polypeptide binding]; other site 572480005408 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 572480005409 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 572480005410 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572480005411 PYR/PP interface [polypeptide binding]; other site 572480005412 dimer interface [polypeptide binding]; other site 572480005413 TPP binding site [chemical binding]; other site 572480005414 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 572480005415 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 572480005416 TPP-binding site [chemical binding]; other site 572480005417 dimer interface [polypeptide binding]; other site 572480005418 flagellin B; Provisional; Region: PRK13588 572480005419 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 572480005420 exopolyphosphatase; Region: exo_poly_only; TIGR03706 572480005421 nucleotide binding site [chemical binding]; other site 572480005422 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 572480005423 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 572480005424 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480005425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480005426 metal binding site [ion binding]; metal-binding site 572480005427 active site 572480005428 I-site; other site 572480005429 thioredoxin 2; Provisional; Region: PRK10996 572480005430 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 572480005431 catalytic residues [active] 572480005432 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 572480005433 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 572480005434 Ligand Binding Site [chemical binding]; other site 572480005435 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480005436 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480005437 dimer interface [polypeptide binding]; other site 572480005438 putative CheW interface [polypeptide binding]; other site 572480005439 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 572480005440 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 572480005441 active site 572480005442 FMN binding site [chemical binding]; other site 572480005443 substrate binding site [chemical binding]; other site 572480005444 3Fe-4S cluster binding site [ion binding]; other site 572480005445 Proline dehydrogenase; Region: Pro_dh; cl03282 572480005446 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 572480005447 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480005448 Glutamate binding site [chemical binding]; other site 572480005449 NAD binding site [chemical binding]; other site 572480005450 catalytic residues [active] 572480005451 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 572480005452 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 572480005453 Walker A/P-loop; other site 572480005454 ATP binding site [chemical binding]; other site 572480005455 Q-loop/lid; other site 572480005456 ABC transporter signature motif; other site 572480005457 Walker B; other site 572480005458 D-loop; other site 572480005459 H-loop/switch region; other site 572480005460 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 572480005461 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 572480005462 Walker A/P-loop; other site 572480005463 ATP binding site [chemical binding]; other site 572480005464 Q-loop/lid; other site 572480005465 ABC transporter signature motif; other site 572480005466 Walker B; other site 572480005467 D-loop; other site 572480005468 H-loop/switch region; other site 572480005469 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 572480005470 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 572480005471 TM-ABC transporter signature motif; other site 572480005472 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572480005473 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 572480005474 TM-ABC transporter signature motif; other site 572480005475 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 572480005476 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 572480005477 dimerization interface [polypeptide binding]; other site 572480005478 ligand binding site [chemical binding]; other site 572480005479 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480005480 EamA-like transporter family; Region: EamA; pfam00892 572480005481 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 572480005482 Ligand Binding Site [chemical binding]; other site 572480005483 HD domain; Region: HD_5; pfam13487 572480005484 HD domain; Region: HD_5; pfam13487 572480005485 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480005486 DsrE/DsrF-like family; Region: DrsE; cl00672 572480005487 MOSC domain; Region: MOSC; pfam03473 572480005488 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 572480005489 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 572480005490 active site 572480005491 metal binding site [ion binding]; metal-binding site 572480005492 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 572480005493 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572480005494 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480005495 active site residue [active] 572480005496 Cytochrome c [Energy production and conversion]; Region: COG3258 572480005497 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 572480005498 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 572480005499 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 572480005500 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 572480005501 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 572480005502 Cytochrome c; Region: Cytochrom_C; pfam00034 572480005503 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 572480005504 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 572480005505 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 572480005506 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 572480005507 Moco binding site; other site 572480005508 metal coordination site [ion binding]; other site 572480005509 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 572480005510 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 572480005511 dimer interface [polypeptide binding]; other site 572480005512 putative functional site; other site 572480005513 putative MPT binding site; other site 572480005514 Predicted permease; Region: DUF318; cl17795 572480005515 Predicted permease; Region: DUF318; cl17795 572480005516 RmuC family; Region: RmuC; pfam02646 572480005517 Peptidase family M48; Region: Peptidase_M48; pfam01435 572480005518 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 572480005519 PLD-like domain; Region: PLDc_2; pfam13091 572480005520 putative active site [active] 572480005521 catalytic site [active] 572480005522 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 572480005523 active site 572480005524 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 572480005525 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572480005526 TrkA-N domain; Region: TrkA_N; pfam02254 572480005527 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572480005528 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572480005529 dimer interface [polypeptide binding]; other site 572480005530 active site 572480005531 metal binding site [ion binding]; metal-binding site 572480005532 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 572480005533 dimerization interface [polypeptide binding]; other site 572480005534 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480005535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480005536 dimer interface [polypeptide binding]; other site 572480005537 putative CheW interface [polypeptide binding]; other site 572480005538 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 572480005539 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 572480005540 active site 572480005541 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572480005542 catalytic tetrad [active] 572480005543 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 572480005544 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 572480005545 gating phenylalanine in ion channel; other site 572480005546 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 572480005547 cobyric acid synthase; Provisional; Region: PRK00784 572480005548 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572480005549 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 572480005550 catalytic triad [active] 572480005551 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 572480005552 MarC family integral membrane protein; Region: MarC; pfam01914 572480005553 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 572480005554 putative dimer interface [polypeptide binding]; other site 572480005555 active site pocket [active] 572480005556 Phosphotransferase enzyme family; Region: APH; pfam01636 572480005557 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 572480005558 active site 572480005559 ATP binding site [chemical binding]; other site 572480005560 substrate binding site [chemical binding]; other site 572480005561 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 572480005562 putative FMN binding site [chemical binding]; other site 572480005563 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 572480005564 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 572480005565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480005566 homodimer interface [polypeptide binding]; other site 572480005567 catalytic residue [active] 572480005568 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 572480005569 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 572480005570 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 572480005571 conserved cys residue [active] 572480005572 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 572480005573 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 572480005574 ABC-ATPase subunit interface; other site 572480005575 dimer interface [polypeptide binding]; other site 572480005576 putative PBP binding regions; other site 572480005577 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572480005578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480005579 Walker A/P-loop; other site 572480005580 ATP binding site [chemical binding]; other site 572480005581 Q-loop/lid; other site 572480005582 ABC transporter signature motif; other site 572480005583 Walker B; other site 572480005584 D-loop; other site 572480005585 H-loop/switch region; other site 572480005586 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 572480005587 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 572480005588 intersubunit interface [polypeptide binding]; other site 572480005589 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 572480005590 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 572480005591 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 572480005592 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 572480005593 motif II; other site 572480005594 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572480005595 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 572480005596 active site 572480005597 uracil binding [chemical binding]; other site 572480005598 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572480005599 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 572480005600 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572480005601 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 572480005602 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480005603 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; cl00080 572480005604 phosphorylation site [posttranslational modification] 572480005605 dimer interface [polypeptide binding]; other site 572480005606 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 572480005607 ATP binding site [chemical binding]; other site 572480005608 Mg2+ binding site [ion binding]; other site 572480005609 G-X-G motif; other site 572480005610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480005611 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 572480005612 active site 572480005613 phosphorylation site [posttranslational modification] 572480005614 intermolecular recognition site; other site 572480005615 dimerization interface [polypeptide binding]; other site 572480005616 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480005617 DNA binding site [nucleotide binding] 572480005618 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 572480005619 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572480005620 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572480005621 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 572480005622 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 572480005623 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 572480005624 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 572480005625 putative active site [active] 572480005626 putative substrate binding site [chemical binding]; other site 572480005627 putative cosubstrate binding site; other site 572480005628 catalytic site [active] 572480005629 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 572480005630 Malic enzyme, N-terminal domain; Region: malic; pfam00390 572480005631 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 572480005632 putative NAD(P) binding site [chemical binding]; other site 572480005633 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 572480005634 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 572480005635 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 572480005636 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 572480005637 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 572480005638 shikimate binding site; other site 572480005639 NAD(P) binding site [chemical binding]; other site 572480005640 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 572480005641 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 572480005642 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 572480005643 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 572480005644 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 572480005645 hypothetical protein; Provisional; Region: PRK04081 572480005646 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 572480005647 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480005648 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480005649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480005650 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 572480005651 dimer interface [polypeptide binding]; other site 572480005652 phosphorylation site [posttranslational modification] 572480005653 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 572480005654 ATP binding site [chemical binding]; other site 572480005655 Mg2+ binding site [ion binding]; other site 572480005656 G-X-G motif; other site 572480005657 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 572480005658 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 572480005659 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480005660 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 572480005661 inhibitor-cofactor binding pocket; inhibition site 572480005662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480005663 catalytic residue [active] 572480005664 NAD synthetase; Provisional; Region: PRK13980 572480005665 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 572480005666 homodimer interface [polypeptide binding]; other site 572480005667 NAD binding pocket [chemical binding]; other site 572480005668 ATP binding pocket [chemical binding]; other site 572480005669 Mg binding site [ion binding]; other site 572480005670 active-site loop [active] 572480005671 hypothetical protein; Provisional; Region: PRK04351 572480005672 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572480005673 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572480005674 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 572480005675 putative metal binding site [ion binding]; other site 572480005676 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 572480005677 HSP70 interaction site [polypeptide binding]; other site 572480005678 sec-independent translocase; Provisional; Region: PRK04098 572480005679 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 572480005680 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 572480005681 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 572480005682 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572480005683 exodeoxyribonuclease X; Provisional; Region: PRK07983 572480005684 active site 572480005685 catalytic site [active] 572480005686 substrate binding site [chemical binding]; other site 572480005687 Response regulator receiver domain; Region: Response_reg; pfam00072 572480005688 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 572480005689 active site 572480005690 phosphorylation site [posttranslational modification] 572480005691 intermolecular recognition site; other site 572480005692 dimerization interface [polypeptide binding]; other site 572480005693 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; cl17355 572480005694 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480005695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480005696 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; cl00080 572480005697 dimer interface [polypeptide binding]; other site 572480005698 phosphorylation site [posttranslational modification] 572480005699 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 572480005700 ATP binding site [chemical binding]; other site 572480005701 Mg2+ binding site [ion binding]; other site 572480005702 G-X-G motif; other site 572480005703 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 572480005704 4Fe-4S binding domain; Region: Fer4_5; pfam12801 572480005705 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 572480005706 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 572480005707 Na2 binding site [ion binding]; other site 572480005708 putative substrate binding site 1 [chemical binding]; other site 572480005709 Na binding site 1 [ion binding]; other site 572480005710 putative substrate binding site 2 [chemical binding]; other site 572480005711 Competence protein; Region: Competence; pfam03772 572480005712 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 572480005713 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 572480005714 putative 4-mercaptohistidine N1-methyltranferase; Region: ovoA_Cterm; TIGR04345 572480005715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480005716 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572480005717 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 572480005718 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 572480005719 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 572480005720 tetramer interface [polypeptide binding]; other site 572480005721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480005722 catalytic residue [active] 572480005723 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480005724 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 572480005725 methylaspartate mutase subunit S; Provisional; Region: PRK02261 572480005726 B12 binding site [chemical binding]; other site 572480005727 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 572480005728 substrate binding site [chemical binding]; other site 572480005729 B12 cofactor binding site [chemical binding]; other site 572480005730 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 572480005731 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 572480005732 MutL protein; Region: MutL; pfam13941 572480005733 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 572480005734 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 572480005735 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 572480005736 acyl-activating enzyme (AAE) consensus motif; other site 572480005737 acyl-activating enzyme (AAE) consensus motif; other site 572480005738 AMP binding site [chemical binding]; other site 572480005739 active site 572480005740 CoA binding site [chemical binding]; other site 572480005741 Cytochrome c; Region: Cytochrom_C; cl11414 572480005742 Cytochrome c; Region: Cytochrom_C; cl11414 572480005743 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480005744 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480005745 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480005746 metal binding site [ion binding]; metal-binding site 572480005747 active site 572480005748 I-site; other site 572480005749 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 572480005750 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 572480005751 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 572480005752 NlpC/P60 family; Region: NLPC_P60; cl17555 572480005753 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572480005754 MraW methylase family; Region: Methyltransf_5; cl17771 572480005755 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 572480005756 hypothetical protein; Provisional; Region: PRK05834 572480005757 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 572480005758 IHF dimer interface [polypeptide binding]; other site 572480005759 IHF - DNA interface [nucleotide binding]; other site 572480005760 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 572480005761 Cytochrome c; Region: Cytochrom_C; cl11414 572480005762 DNA topoisomerase VI subunit B; Provisional; Region: PRK14867 572480005763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480005764 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 572480005765 dimer interface [polypeptide binding]; other site 572480005766 phosphorylation site [posttranslational modification] 572480005767 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 572480005768 ATP binding site [chemical binding]; other site 572480005769 Mg2+ binding site [ion binding]; other site 572480005770 G-X-G motif; other site 572480005771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480005772 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 572480005773 active site 572480005774 phosphorylation site [posttranslational modification] 572480005775 intermolecular recognition site; other site 572480005776 dimerization interface [polypeptide binding]; other site 572480005777 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 572480005778 DNA binding site [nucleotide binding] 572480005779 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 572480005780 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 572480005781 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 572480005782 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 572480005783 DEAD/DEAH box helicase; Region: DEAD; pfam00270 572480005784 ATP binding site [chemical binding]; other site 572480005785 putative Mg++ binding site [ion binding]; other site 572480005786 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 572480005787 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 572480005788 nucleotide binding region [chemical binding]; other site 572480005789 ATP-binding site [chemical binding]; other site 572480005790 SEC-C motif; Region: SEC-C; pfam02810 572480005791 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 572480005792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572480005793 FtsX-like permease family; Region: FtsX; pfam02687 572480005794 Protein of unknown function; Region: DUF3971; pfam13116 572480005795 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 572480005796 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 572480005797 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 572480005798 dimerization interface [polypeptide binding]; other site 572480005799 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 572480005800 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 572480005801 malate dehydrogenase; Reviewed; Region: PRK06223 572480005802 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 572480005803 dimer interface [polypeptide binding]; other site 572480005804 NAD(P) binding site [chemical binding]; other site 572480005805 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572480005806 substrate binding site [chemical binding]; other site 572480005807 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 572480005808 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572480005809 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 572480005810 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 572480005811 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 572480005812 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 572480005813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480005814 chaperone protein DnaJ; Provisional; Region: PRK14299 572480005815 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 572480005816 HSP70 interaction site [polypeptide binding]; other site 572480005817 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 572480005818 substrate binding site [polypeptide binding]; other site 572480005819 dimer interface [polypeptide binding]; other site 572480005820 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 572480005821 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 572480005822 DNA binding residues [nucleotide binding] 572480005823 putative dimer interface [polypeptide binding]; other site 572480005824 cell division protein FtsZ; Validated; Region: PRK09330 572480005825 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 572480005826 nucleotide binding site [chemical binding]; other site 572480005827 SulA interaction site; other site 572480005828 cell division protein FtsA; Region: ftsA; TIGR01174 572480005829 Cell division protein FtsA; Region: FtsA; smart00842 572480005830 Cell division protein FtsA; Region: FtsA; pfam14450 572480005831 SurA N-terminal domain; Region: SurA_N_3; cl07813 572480005832 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 572480005833 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 572480005834 AAA domain; Region: AAA_30; pfam13604 572480005835 Family description; Region: UvrD_C_2; pfam13538 572480005836 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 572480005837 ArsC family; Region: ArsC; pfam03960 572480005838 catalytic residues [active] 572480005839 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 572480005840 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 572480005841 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 572480005842 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572480005843 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572480005844 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480005845 dimer interface [polypeptide binding]; other site 572480005846 putative CheW interface [polypeptide binding]; other site 572480005847 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 572480005848 PAS fold; Region: PAS_3; pfam08447 572480005849 putative active site [active] 572480005850 heme pocket [chemical binding]; other site 572480005851 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 572480005852 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 572480005853 substrate binding pocket [chemical binding]; other site 572480005854 membrane-bound complex binding site; other site 572480005855 hinge residues; other site 572480005856 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 572480005857 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480005858 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480005859 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480005860 dimer interface [polypeptide binding]; other site 572480005861 putative CheW interface [polypeptide binding]; other site 572480005862 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 572480005863 PAS domain; Region: PAS_9; pfam13426 572480005864 putative active site [active] 572480005865 heme pocket [chemical binding]; other site 572480005866 Outer membrane efflux protein; Region: OEP; pfam02321 572480005867 Outer membrane efflux protein; Region: OEP; pfam02321 572480005868 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 572480005869 binding surface 572480005870 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572480005871 TPR motif; other site 572480005872 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572480005873 FecR protein; Region: FecR; pfam04773 572480005874 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 572480005875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480005876 Coenzyme A binding pocket [chemical binding]; other site 572480005877 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 572480005878 G1 box; other site 572480005879 GTP/Mg2+ binding site [chemical binding]; other site 572480005880 Switch I region; other site 572480005881 G2 box; other site 572480005882 G3 box; other site 572480005883 Switch II region; other site 572480005884 G4 box; other site 572480005885 G5 box; other site 572480005886 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 572480005887 OstA-like protein; Region: OstA; pfam03968 572480005888 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 572480005889 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 572480005890 active site 572480005891 motif I; other site 572480005892 motif II; other site 572480005893 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 572480005894 putative active site pocket [active] 572480005895 4-fold oligomerization interface [polypeptide binding]; other site 572480005896 metal binding residues [ion binding]; metal-binding site 572480005897 3-fold/trimer interface [polypeptide binding]; other site 572480005898 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 572480005899 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 572480005900 Sporulation related domain; Region: SPOR; pfam05036 572480005901 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 572480005902 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 572480005903 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572480005904 catalytic residue [active] 572480005905 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572480005906 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572480005907 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 572480005908 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 572480005909 active site 572480005910 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 572480005911 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 572480005912 Walker A motif; other site 572480005913 ATP binding site [chemical binding]; other site 572480005914 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 572480005915 Walker B motif; other site 572480005916 arginine finger; other site 572480005917 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480005918 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 572480005919 active site 572480005920 HslU subunit interaction site [polypeptide binding]; other site 572480005921 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 572480005922 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 572480005923 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 572480005924 multiple promoter invertase; Provisional; Region: mpi; PRK13413 572480005925 Resolvase, N terminal domain; Region: Resolvase; pfam00239 572480005926 catalytic residues [active] 572480005927 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 572480005928 Flavoprotein; Region: Flavoprotein; pfam02441 572480005929 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 572480005930 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 572480005931 active site 572480005932 (T/H)XGH motif; other site 572480005933 thymidylate kinase; Validated; Region: tmk; PRK00698 572480005934 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 572480005935 TMP-binding site; other site 572480005936 ATP-binding site [chemical binding]; other site 572480005937 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 572480005938 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 572480005939 dimer interface [polypeptide binding]; other site 572480005940 motif 1; other site 572480005941 active site 572480005942 motif 2; other site 572480005943 motif 3; other site 572480005944 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 572480005945 anticodon binding site; other site 572480005946 arginine decarboxylase; Provisional; Region: PRK05354 572480005947 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 572480005948 active site 572480005949 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480005950 catalytic residues [active] 572480005951 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 572480005952 serine O-acetyltransferase; Region: cysE; TIGR01172 572480005953 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 572480005954 trimer interface [polypeptide binding]; other site 572480005955 active site 572480005956 substrate binding site [chemical binding]; other site 572480005957 CoA binding site [chemical binding]; other site 572480005958 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572480005959 helicase 45; Provisional; Region: PTZ00424 572480005960 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 572480005961 ATP binding site [chemical binding]; other site 572480005962 Mg++ binding site [ion binding]; other site 572480005963 motif III; other site 572480005964 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 572480005965 nucleotide binding region [chemical binding]; other site 572480005966 ATP-binding site [chemical binding]; other site 572480005967 aconitate hydratase; Validated; Region: PRK09277 572480005968 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 572480005969 substrate binding site [chemical binding]; other site 572480005970 ligand binding site [chemical binding]; other site 572480005971 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 572480005972 substrate binding site [chemical binding]; other site 572480005973 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572480005974 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572480005975 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 572480005976 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572480005977 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572480005978 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 572480005979 Domain of unknown function (DUF309); Region: DUF309; cl00667 572480005980 Domain of unknown function DUF21; Region: DUF21; pfam01595 572480005981 FOG: CBS domain [General function prediction only]; Region: COG0517 572480005982 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 572480005983 DTW domain; Region: DTW; cl01221 572480005984 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 572480005985 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 572480005986 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 572480005987 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 572480005988 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 572480005989 S-adenosylmethionine binding site [chemical binding]; other site 572480005990 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 572480005991 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 572480005992 NodB motif; other site 572480005993 putative active site [active] 572480005994 Uncharacterized conserved protein [Function unknown]; Region: COG1284 572480005995 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572480005996 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 572480005997 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572480005998 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 572480005999 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 572480006000 EamA-like transporter family; Region: EamA; pfam00892 572480006001 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 572480006002 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572480006003 ligand binding site [chemical binding]; other site 572480006004 NAD binding site [chemical binding]; other site 572480006005 catalytic site [active] 572480006006 Cupin domain; Region: Cupin_2; cl17218 572480006007 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 572480006008 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 572480006009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480006010 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572480006011 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 572480006012 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572480006013 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 572480006014 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480006015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480006016 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480006017 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 572480006018 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 572480006019 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 572480006020 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480006021 catalytic residues [active] 572480006022 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 572480006023 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 572480006024 dimer interface [polypeptide binding]; other site 572480006025 decamer (pentamer of dimers) interface [polypeptide binding]; other site 572480006026 catalytic triad [active] 572480006027 peroxidatic and resolving cysteines [active] 572480006028 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 572480006029 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 572480006030 tetrathionate reductase subunit A; Provisional; Region: PRK14991 572480006031 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 572480006032 putative [Fe4-S4] binding site [ion binding]; other site 572480006033 putative molybdopterin cofactor binding site [chemical binding]; other site 572480006034 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 572480006035 putative molybdopterin cofactor binding site; other site 572480006036 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 572480006037 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 572480006038 tetrathionate reductase subunit B; Provisional; Region: PRK14993 572480006039 4Fe-4S binding domain; Region: Fer4; pfam00037 572480006040 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006041 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 572480006042 dimer interface [polypeptide binding]; other site 572480006043 phosphorylation site [posttranslational modification] 572480006044 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 572480006045 ATP binding site [chemical binding]; other site 572480006046 Mg2+ binding site [ion binding]; other site 572480006047 G-X-G motif; other site 572480006048 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006049 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 572480006050 active site 572480006051 phosphorylation site [posttranslational modification] 572480006052 intermolecular recognition site; other site 572480006053 dimerization interface [polypeptide binding]; other site 572480006054 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 572480006055 DNA binding site [nucleotide binding] 572480006056 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 572480006057 DNA-binding site [nucleotide binding]; DNA binding site 572480006058 RNA-binding motif; other site 572480006059 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 572480006060 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 572480006061 S-adenosylmethionine binding site [chemical binding]; other site 572480006062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480006063 C factor cell-cell signaling protein; Provisional; Region: PRK09009 572480006064 NAD(P) binding site [chemical binding]; other site 572480006065 active site 572480006066 Homeodomain-like domain; Region: HTH_23; pfam13384 572480006067 Winged helix-turn helix; Region: HTH_29; pfam13551 572480006068 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572480006069 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480006070 Zn2+ binding site [ion binding]; other site 572480006071 Mg2+ binding site [ion binding]; other site 572480006072 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572480006073 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480006074 EamA-like transporter family; Region: EamA; pfam00892 572480006075 Phosphotransferase enzyme family; Region: APH; pfam01636 572480006076 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 572480006077 active site 572480006078 substrate binding site [chemical binding]; other site 572480006079 ATP binding site [chemical binding]; other site 572480006080 dimer interface [polypeptide binding]; other site 572480006081 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 572480006082 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 572480006083 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 572480006084 dimerization interface [polypeptide binding]; other site 572480006085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006086 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 572480006087 ATP binding site [chemical binding]; other site 572480006088 Mg2+ binding site [ion binding]; other site 572480006089 G-X-G motif; other site 572480006090 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 572480006091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480006092 DNA-binding site [nucleotide binding]; DNA binding site 572480006093 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 572480006094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480006095 homodimer interface [polypeptide binding]; other site 572480006096 catalytic residue [active] 572480006097 YrhK-like protein; Region: YrhK; pfam14145 572480006098 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 572480006099 pseudouridine synthase; Region: TIGR00093 572480006100 active site 572480006101 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572480006102 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 572480006103 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 572480006104 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 572480006105 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 572480006106 active site 572480006107 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 572480006108 aconitate hydratase 1; Region: aconitase_1; TIGR01341 572480006109 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480006110 active site residue [active] 572480006111 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 572480006112 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572480006113 OsmC-like protein; Region: OsmC; pfam02566 572480006114 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 572480006115 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006116 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 572480006117 active site 572480006118 phosphorylation site [posttranslational modification] 572480006119 intermolecular recognition site; other site 572480006120 dimerization interface [polypeptide binding]; other site 572480006121 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 572480006122 DNA binding site [nucleotide binding] 572480006123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006124 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 572480006125 dimerization interface [polypeptide binding]; other site 572480006126 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 572480006127 dimer interface [polypeptide binding]; other site 572480006128 phosphorylation site [posttranslational modification] 572480006129 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 572480006130 ATP binding site [chemical binding]; other site 572480006131 Mg2+ binding site [ion binding]; other site 572480006132 G-X-G motif; other site 572480006133 Cache domain; Region: Cache_1; pfam02743 572480006134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480006135 dimer interface [polypeptide binding]; other site 572480006136 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480006137 putative CheW interface [polypeptide binding]; other site 572480006138 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 572480006139 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 572480006140 active site 572480006141 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 572480006142 active site 2 [active] 572480006143 active site 1 [active] 572480006144 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 572480006145 putative active site pocket [active] 572480006146 dimerization interface [polypeptide binding]; other site 572480006147 putative catalytic residue [active] 572480006148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 572480006149 Coenzyme A binding pocket [chemical binding]; other site 572480006150 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572480006151 Uncharacterized conserved protein [Function unknown]; Region: COG2128 572480006152 phage exclusion protein Lit; Provisional; Region: PRK09672 572480006153 Peptidase U49; Region: Peptidase_U49; pfam10463 572480006154 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 572480006155 putative active site pocket [active] 572480006156 dimerization interface [polypeptide binding]; other site 572480006157 putative catalytic residue [active] 572480006158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480006159 Coenzyme A binding pocket [chemical binding]; other site 572480006160 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 572480006161 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572480006162 GMP synthase; Reviewed; Region: guaA; PRK00074 572480006163 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 572480006164 AMP/PPi binding site [chemical binding]; other site 572480006165 candidate oxyanion hole; other site 572480006166 catalytic triad [active] 572480006167 potential glutamine specificity residues [chemical binding]; other site 572480006168 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 572480006169 ATP Binding subdomain [chemical binding]; other site 572480006170 Ligand Binding sites [chemical binding]; other site 572480006171 Dimerization subdomain; other site 572480006172 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 572480006173 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 572480006174 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 572480006175 L-aspartate oxidase; Provisional; Region: PRK06175 572480006176 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 572480006177 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572480006178 Protein of unknown function (DUF721); Region: DUF721; cl02324 572480006179 Protein of unknown function DUF45; Region: DUF45; pfam01863 572480006180 aspartate aminotransferase; Provisional; Region: PRK05764 572480006181 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 572480006182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480006183 homodimer interface [polypeptide binding]; other site 572480006184 catalytic residue [active] 572480006185 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 572480006186 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 572480006187 CHASE2 domain; Region: CHASE2; pfam05226 572480006188 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 572480006189 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 572480006190 cyclase homology domain; Region: CHD; cd07302 572480006191 nucleotidyl binding site; other site 572480006192 metal binding site [ion binding]; metal-binding site 572480006193 dimer interface [polypeptide binding]; other site 572480006194 FOG: CBS domain [General function prediction only]; Region: COG0517 572480006195 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 572480006196 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572480006197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480006198 Walker A/P-loop; other site 572480006199 ATP binding site [chemical binding]; other site 572480006200 Q-loop/lid; other site 572480006201 ABC transporter signature motif; other site 572480006202 Walker B; other site 572480006203 D-loop; other site 572480006204 H-loop/switch region; other site 572480006205 ABC transporter; Region: ABC_tran_2; pfam12848 572480006206 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572480006207 Yqey-like protein; Region: YqeY; pfam09424 572480006208 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480006209 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480006210 metal binding site [ion binding]; metal-binding site 572480006211 active site 572480006212 I-site; other site 572480006213 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 572480006214 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 572480006215 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 572480006216 haemagglutination activity domain; Region: Haemagg_act; pfam05860 572480006217 TIGR03032 family protein; Region: TIGR03032 572480006218 TPR repeat; Region: TPR_11; pfam13414 572480006219 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 572480006220 binding surface 572480006221 TPR motif; other site 572480006222 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572480006223 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 572480006224 ligand-binding site [chemical binding]; other site 572480006225 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480006226 Autotransporter beta-domain; Region: Autotransporter; pfam03797 572480006227 haemagglutination activity domain; Region: Haemagg_act; smart00912 572480006228 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480006229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 572480006230 Histidine kinase; Region: HisKA_2; pfam07568 572480006231 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 572480006232 Mg2+ binding site [ion binding]; other site 572480006233 G-X-G motif; other site 572480006234 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480006235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006236 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 572480006237 active site 572480006238 phosphorylation site [posttranslational modification] 572480006239 intermolecular recognition site; other site 572480006240 dimerization interface [polypeptide binding]; other site 572480006241 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480006242 DNA binding site [nucleotide binding] 572480006243 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 572480006244 short chain dehydrogenase; Provisional; Region: PRK05993 572480006245 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 572480006246 NADP binding site [chemical binding]; other site 572480006247 active site 572480006248 steroid binding site; other site 572480006249 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 572480006250 Predicted membrane protein [Function unknown]; Region: COG1971 572480006251 Domain of unknown function DUF; Region: DUF204; pfam02659 572480006252 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572480006253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 572480006254 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 572480006255 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 572480006256 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 572480006257 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 572480006258 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572480006259 active site 572480006260 catalytic tetrad [active] 572480006261 phosphodiesterase; Provisional; Region: PRK12704 572480006262 Gamma subunit of transcription initiation factor IIA, N-terminal helical domain; Region: TFIIA_gamma_N; cl03508 572480006263 TFIIA subunit interface [polypeptide binding]; other site 572480006264 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480006265 Zn2+ binding site [ion binding]; other site 572480006266 Mg2+ binding site [ion binding]; other site 572480006267 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 572480006268 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 572480006269 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 572480006270 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480006271 catalytic residues [active] 572480006272 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 572480006273 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 572480006274 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 572480006275 P loop; other site 572480006276 GTP binding site [chemical binding]; other site 572480006277 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006278 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 572480006279 active site 572480006280 phosphorylation site [posttranslational modification] 572480006281 intermolecular recognition site; other site 572480006282 dimerization interface [polypeptide binding]; other site 572480006283 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480006284 DNA binding site [nucleotide binding] 572480006285 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006286 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 572480006287 dimer interface [polypeptide binding]; other site 572480006288 phosphorylation site [posttranslational modification] 572480006289 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 572480006290 ATP binding site [chemical binding]; other site 572480006291 Mg2+ binding site [ion binding]; other site 572480006292 G-X-G motif; other site 572480006293 Cytochrome c [Energy production and conversion]; Region: COG3258 572480006294 Cytochrome c; Region: Cytochrom_C; pfam00034 572480006295 Predicted transcriptional regulators [Transcription]; Region: COG1695 572480006296 Transcriptional regulator PadR-like family; Region: PadR; cl17335 572480006297 Transcriptional regulator PadR-like family; Region: PadR; cl17335 572480006298 LysE type translocator; Region: LysE; cl00565 572480006299 RNase H; Region: RNase_H; pfam00075 572480006300 RNA/DNA hybrid binding site [nucleotide binding]; other site 572480006301 active site 572480006302 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 572480006303 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572480006304 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480006305 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480006306 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480006307 dimer interface [polypeptide binding]; other site 572480006308 putative CheW interface [polypeptide binding]; other site 572480006309 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 572480006310 active site 572480006311 catalytic residues [active] 572480006312 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 572480006313 nucleoside/Zn binding site; other site 572480006314 dimer interface [polypeptide binding]; other site 572480006315 catalytic motif [active] 572480006316 Alginate lyase; Region: Alginate_lyase2; pfam08787 572480006317 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480006318 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 572480006319 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480006320 DNA repair protein RadA; Provisional; Region: PRK11823 572480006321 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 572480006322 Walker A motif/ATP binding site; other site 572480006323 ATP binding site [chemical binding]; other site 572480006324 Walker B motif; other site 572480006325 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572480006326 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 572480006327 active site 2 [active] 572480006328 active site 1 [active] 572480006329 metal-binding heat shock protein; Provisional; Region: PRK00016 572480006330 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 572480006331 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572480006332 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572480006333 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572480006334 metal binding site 2 [ion binding]; metal-binding site 572480006335 putative DNA binding helix; other site 572480006336 metal binding site 1 [ion binding]; metal-binding site 572480006337 dimer interface [polypeptide binding]; other site 572480006338 structural Zn2+ binding site [ion binding]; other site 572480006339 Ferritin-like domain; Region: Ferritin; pfam00210 572480006340 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 572480006341 dimerization interface [polypeptide binding]; other site 572480006342 DPS ferroxidase diiron center [ion binding]; other site 572480006343 ion pore; other site 572480006344 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 572480006345 non-heme iron binding site [ion binding]; other site 572480006346 dimer interface [polypeptide binding]; other site 572480006347 Rubrerythrin [Energy production and conversion]; Region: COG1592 572480006348 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 572480006349 binuclear metal center [ion binding]; other site 572480006350 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 572480006351 iron binding site [ion binding]; other site 572480006352 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572480006353 putative catalytic site [active] 572480006354 putative metal binding site [ion binding]; other site 572480006355 putative phosphate binding site [ion binding]; other site 572480006356 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 572480006357 MviN-like protein; Region: MVIN; pfam03023 572480006358 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572480006359 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480006360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480006361 Walker A/P-loop; other site 572480006362 ATP binding site [chemical binding]; other site 572480006363 Q-loop/lid; other site 572480006364 ABC transporter signature motif; other site 572480006365 Walker B; other site 572480006366 D-loop; other site 572480006367 H-loop/switch region; other site 572480006368 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 572480006369 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 572480006370 quinone interaction residues [chemical binding]; other site 572480006371 active site 572480006372 catalytic residues [active] 572480006373 FMN binding site [chemical binding]; other site 572480006374 substrate binding site [chemical binding]; other site 572480006375 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572480006376 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572480006377 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572480006378 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 572480006379 heme-binding site [chemical binding]; other site 572480006380 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 572480006381 dihydrodipicolinate synthase; Region: dapA; TIGR00674 572480006382 dimer interface [polypeptide binding]; other site 572480006383 active site 572480006384 catalytic residue [active] 572480006385 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 572480006386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480006387 NAD(P) binding site [chemical binding]; other site 572480006388 active site 572480006389 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 572480006390 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 572480006391 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 572480006392 active site 572480006393 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 572480006394 protein binding site [polypeptide binding]; other site 572480006395 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 572480006396 putative substrate binding region [chemical binding]; other site 572480006397 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 572480006398 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480006399 catalytic residue [active] 572480006400 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 572480006401 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 572480006402 active site 572480006403 ribulose/triose binding site [chemical binding]; other site 572480006404 phosphate binding site [ion binding]; other site 572480006405 substrate (anthranilate) binding pocket [chemical binding]; other site 572480006406 product (indole) binding pocket [chemical binding]; other site 572480006407 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 572480006408 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 572480006409 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 572480006410 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 572480006411 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572480006412 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 572480006413 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 572480006414 dimer interface [polypeptide binding]; other site 572480006415 PYR/PP interface [polypeptide binding]; other site 572480006416 TPP binding site [chemical binding]; other site 572480006417 substrate binding site [chemical binding]; other site 572480006418 LabA_like proteins; Region: LabA_like; cd06167 572480006419 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 572480006420 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 572480006421 TPP-binding site [chemical binding]; other site 572480006422 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 572480006423 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 572480006424 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 572480006425 HD domain; Region: HD_4; pfam13328 572480006426 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 572480006427 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572480006428 active site 572480006429 catalytic site [active] 572480006430 substrate binding site [chemical binding]; other site 572480006431 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 572480006432 active site 572480006433 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 572480006434 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 572480006435 substrate binding site [chemical binding]; other site 572480006436 hexamer interface [polypeptide binding]; other site 572480006437 metal binding site [ion binding]; metal-binding site 572480006438 Phospholipase A1; Region: PLA1; pfam02253 572480006439 dimerization interface [polypeptide binding]; other site 572480006440 substrate binding site [chemical binding]; other site 572480006441 active site 572480006442 calcium binding site [ion binding]; other site 572480006443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006444 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 572480006445 dimer interface [polypeptide binding]; other site 572480006446 phosphorylation site [posttranslational modification] 572480006447 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 572480006448 ATP binding site [chemical binding]; other site 572480006449 Mg2+ binding site [ion binding]; other site 572480006450 G-X-G motif; other site 572480006451 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006452 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 572480006453 active site 572480006454 phosphorylation site [posttranslational modification] 572480006455 intermolecular recognition site; other site 572480006456 dimerization interface [polypeptide binding]; other site 572480006457 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; cl17355 572480006458 DNA binding site [nucleotide binding] 572480006459 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480006460 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480006461 metal binding site [ion binding]; metal-binding site 572480006462 active site 572480006463 I-site; other site 572480006464 flagellin B; Provisional; Region: PRK13588 572480006465 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 572480006466 dimer interface [polypeptide binding]; other site 572480006467 ADP-ribose binding site [chemical binding]; other site 572480006468 active site 572480006469 nudix motif; other site 572480006470 metal binding site [ion binding]; metal-binding site 572480006471 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006472 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 572480006473 dimer interface [polypeptide binding]; other site 572480006474 phosphorylation site [posttranslational modification] 572480006475 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 572480006476 ATP binding site [chemical binding]; other site 572480006477 Mg2+ binding site [ion binding]; other site 572480006478 G-X-G motif; other site 572480006479 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480006480 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 572480006481 active site 572480006482 phosphorylation site [posttranslational modification] 572480006483 intermolecular recognition site; other site 572480006484 dimerization interface [polypeptide binding]; other site 572480006485 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 572480006486 DNA binding site [nucleotide binding] 572480006487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 572480006488 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 572480006489 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 572480006490 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480006491 active site 572480006492 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 572480006493 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572480006494 Protein of unknown function DUF89; Region: DUF89; cl15397 572480006495 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 572480006496 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 572480006497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572480006498 DNA-binding site [nucleotide binding]; DNA binding site 572480006499 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 572480006500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480006501 homodimer interface [polypeptide binding]; other site 572480006502 catalytic residue [active] 572480006503 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480006504 molybdopterin cofactor binding site; other site 572480006505 Molydopterin dinucleotide binding domain; Region: Molydop_binding; pfam01568 572480006506 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 572480006507 conserved cys residue [active] 572480006508 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 572480006509 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 572480006510 S-adenosylmethionine binding site [chemical binding]; other site 572480006511 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572480006512 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 572480006513 active site 572480006514 SAM binding site [chemical binding]; other site 572480006515 homodimer interface [polypeptide binding]; other site 572480006516 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 572480006517 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 572480006518 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 572480006519 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 572480006520 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 572480006521 active site 572480006522 SAM binding site [chemical binding]; other site 572480006523 homodimer interface [polypeptide binding]; other site 572480006524 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 572480006525 active site 572480006526 SAM binding site [chemical binding]; other site 572480006527 putative homodimer interface [polypeptide binding]; other site 572480006528 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 572480006529 S-adenosylmethionine binding site [chemical binding]; other site 572480006530 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 572480006531 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 572480006532 dimer interface [polypeptide binding]; other site 572480006533 [2Fe-2S] cluster binding site [ion binding]; other site 572480006534 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 572480006535 Precorrin-8X methylmutase; Region: CbiC; pfam02570 572480006536 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 572480006537 active site 572480006538 SAM binding site [chemical binding]; other site 572480006539 homodimer interface [polypeptide binding]; other site 572480006540 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 572480006541 active site 572480006542 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 572480006543 active site 572480006544 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 572480006545 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480006546 active site 572480006547 metal binding site [ion binding]; metal-binding site 572480006548 hexamer interface [polypeptide binding]; other site 572480006549 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 572480006550 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480006551 Walker A/P-loop; other site 572480006552 ATP binding site [chemical binding]; other site 572480006553 Q-loop/lid; other site 572480006554 ABC transporter signature motif; other site 572480006555 Walker B; other site 572480006556 D-loop; other site 572480006557 H-loop/switch region; other site 572480006558 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572480006559 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 572480006560 dimer interface [polypeptide binding]; other site 572480006561 conserved gate region; other site 572480006562 putative PBP binding loops; other site 572480006563 ABC-ATPase subunit interface; other site 572480006564 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 572480006565 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 572480006566 dimer interface [polypeptide binding]; other site 572480006567 conserved gate region; other site 572480006568 putative PBP binding loops; other site 572480006569 ABC-ATPase subunit interface; other site 572480006570 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 572480006571 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 572480006572 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572480006573 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572480006574 DNA binding site [nucleotide binding] 572480006575 domain linker motif; other site 572480006576 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572480006577 NMT1/THI5 like; Region: NMT1; pfam09084 572480006578 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480006579 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 572480006580 substrate binding pocket [chemical binding]; other site 572480006581 membrane-bound complex binding site; other site 572480006582 hinge residues; other site 572480006583 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480006584 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 572480006585 substrate binding pocket [chemical binding]; other site 572480006586 membrane-bound complex binding site; other site 572480006587 hinge residues; other site 572480006588 PAS domain; Region: PAS_9; pfam13426 572480006589 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 572480006590 putative active site [active] 572480006591 heme pocket [chemical binding]; other site 572480006592 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480006593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480006594 metal binding site [ion binding]; metal-binding site 572480006595 active site 572480006596 I-site; other site 572480006597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480006598 Helix-turn-helix domain; Region: HTH_18; pfam12833 572480006599 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 572480006600 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 572480006601 DNA binding site [nucleotide binding] 572480006602 active site 572480006603 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 572480006604 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480006605 catalytic residues [active] 572480006606 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480006607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480006608 acyl-CoA synthetase; Validated; Region: PRK05850 572480006609 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 572480006610 acyl-activating enzyme (AAE) consensus motif; other site 572480006611 active site 572480006612 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 572480006613 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 572480006614 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 572480006615 active site 572480006616 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 572480006617 KR domain; Region: KR; pfam08659 572480006618 putative NADP binding site [chemical binding]; other site 572480006619 active site 572480006620 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006621 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 572480006622 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 572480006623 Condensation domain; Region: Condensation; pfam00668 572480006624 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 572480006625 Nonribosomal peptide synthase; Region: NRPS; pfam08415 572480006626 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 572480006627 acyl-activating enzyme (AAE) consensus motif; other site 572480006628 AMP binding site [chemical binding]; other site 572480006629 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006630 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 572480006631 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 572480006632 active site 572480006633 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 572480006634 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 572480006635 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 572480006636 KR domain; Region: KR; pfam08659 572480006637 putative NADP binding site [chemical binding]; other site 572480006638 active site 572480006639 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006640 Condensation domain; Region: Condensation; pfam00668 572480006641 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 572480006642 Nonribosomal peptide synthase; Region: NRPS; pfam08415 572480006643 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 572480006644 acyl-activating enzyme (AAE) consensus motif; other site 572480006645 AMP binding site [chemical binding]; other site 572480006646 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006647 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 572480006648 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 572480006649 active site 572480006650 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 572480006651 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 572480006652 S-adenosylmethionine binding site [chemical binding]; other site 572480006653 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 572480006654 KR domain; Region: KR; pfam08659 572480006655 putative NADP binding site [chemical binding]; other site 572480006656 active site 572480006657 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006658 Condensation domain; Region: Condensation; pfam00668 572480006659 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 572480006660 Nonribosomal peptide synthase; Region: NRPS; pfam08415 572480006661 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 572480006662 acyl-activating enzyme (AAE) consensus motif; other site 572480006663 AMP binding site [chemical binding]; other site 572480006664 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 572480006665 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 572480006666 Thioesterase domain; Region: Thioesterase; pfam00975 572480006667 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 572480006668 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 572480006669 NAD(P) binding site [chemical binding]; other site 572480006670 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 572480006671 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 572480006672 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480006673 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480006674 N-terminal plug; other site 572480006675 ligand-binding site [chemical binding]; other site 572480006676 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 572480006677 Protein export membrane protein; Region: SecD_SecF; cl14618 572480006678 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 572480006679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480006680 active site 572480006681 HIGH motif; other site 572480006682 nucleotide binding site [chemical binding]; other site 572480006683 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 572480006684 KMSKS motif; other site 572480006685 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 572480006686 GatB domain; Region: GatB_Yqey; smart00845 572480006687 Uncharacterized conserved protein [Function unknown]; Region: COG0397 572480006688 hypothetical protein; Validated; Region: PRK00029 572480006689 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 572480006690 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 572480006691 FeS/SAM binding site; other site 572480006692 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 572480006693 substrate binding site [chemical binding]; other site 572480006694 active site 572480006695 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 572480006696 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 572480006697 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572480006698 DNA gyrase subunit A; Validated; Region: PRK05560 572480006699 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 572480006700 CAP-like domain; other site 572480006701 active site 572480006702 primary dimer interface [polypeptide binding]; other site 572480006703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572480006709 Protein of unknown function (DUF465); Region: DUF465; cl01070 572480006710 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 572480006711 heterotetramer interface [polypeptide binding]; other site 572480006712 active site pocket [active] 572480006713 cleavage site 572480006714 Ion channel; Region: Ion_trans_2; pfam07885 572480006715 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 572480006716 TrkA-N domain; Region: TrkA_N; pfam02254 572480006717 TrkA-C domain; Region: TrkA_C; pfam02080 572480006718 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 572480006719 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 572480006720 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480006721 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006722 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 572480006723 putative active site [active] 572480006724 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480006725 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 572480006726 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006727 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 572480006728 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 572480006729 trimer interface [polypeptide binding]; other site 572480006730 active site 572480006731 substrate binding site [chemical binding]; other site 572480006732 CoA binding site [chemical binding]; other site 572480006733 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 572480006734 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006735 putative active site [active] 572480006736 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006737 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 572480006738 putative active site [active] 572480006739 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 572480006740 putative active site [active] 572480006741 putative metal binding site [ion binding]; other site 572480006742 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 572480006743 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 572480006744 putative ADP-binding pocket [chemical binding]; other site 572480006745 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006746 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 572480006747 putative active site [active] 572480006748 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 572480006749 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 572480006750 putative metal binding site; other site 572480006751 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 572480006752 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 572480006753 putative acyl-acceptor binding pocket; other site 572480006754 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572480006755 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 572480006756 putative active site [active] 572480006757 exopolyphosphatase; Region: exo_poly_only; TIGR03706 572480006758 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 572480006759 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572480006760 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572480006761 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 572480006762 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480006763 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480006764 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 572480006765 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 572480006766 active site 572480006767 dimer interface [polypeptide binding]; other site 572480006768 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 572480006769 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 572480006770 active site 572480006771 FMN binding site [chemical binding]; other site 572480006772 substrate binding site [chemical binding]; other site 572480006773 3Fe-4S cluster binding site [ion binding]; other site 572480006774 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 572480006775 domain interface; other site 572480006776 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572480006777 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 572480006778 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572480006779 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 572480006780 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572480006781 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 572480006782 DctM-like transporters; Region: DctM; pfam06808 572480006783 Cache domain; Region: Cache_2; cl07034 572480006784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480006785 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 572480006786 ATP binding site [chemical binding]; other site 572480006787 Mg2+ binding site [ion binding]; other site 572480006788 G-X-G motif; other site 572480006789 Response regulator receiver domain; Region: Response_reg; pfam00072 572480006790 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 572480006791 active site 572480006792 phosphorylation site [posttranslational modification] 572480006793 intermolecular recognition site; other site 572480006794 dimerization interface [polypeptide binding]; other site 572480006795 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480006796 DNA binding site [nucleotide binding] 572480006797 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 572480006798 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 572480006799 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 572480006800 FeS/SAM binding site; other site 572480006801 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 572480006802 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 572480006803 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572480006804 ATP binding site [chemical binding]; other site 572480006805 Mg++ binding site [ion binding]; other site 572480006806 motif III; other site 572480006807 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 572480006808 nucleotide binding region [chemical binding]; other site 572480006809 ATP-binding site [chemical binding]; other site 572480006810 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 572480006811 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572480006812 active site 572480006813 catalytic site [active] 572480006814 substrate binding site [chemical binding]; other site 572480006815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480006816 metal binding site [ion binding]; metal-binding site 572480006817 active site 572480006818 I-site; other site 572480006819 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480006820 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 572480006821 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 572480006822 intracellular protease, PfpI family; Region: PfpI; TIGR01382 572480006823 conserved cys residue [active] 572480006824 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572480006825 MarR family; Region: MarR_2; pfam12802 572480006826 Bacterial transcriptional regulator; Region: IclR; pfam01614 572480006827 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 572480006828 nudix motif; other site 572480006829 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 572480006830 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572480006831 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572480006832 Zn2+ binding site [ion binding]; other site 572480006833 Mg2+ binding site [ion binding]; other site 572480006834 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 572480006835 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480006836 active site 572480006837 Protein of unknown function (DUF808); Region: DUF808; cl01002 572480006838 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 572480006839 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 572480006840 putative substrate translocation pore; other site 572480006841 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 572480006842 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480006843 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480006844 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572480006845 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480006846 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480006847 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 572480006848 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 572480006849 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 572480006850 active site 572480006851 dimer interface [polypeptide binding]; other site 572480006852 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 572480006853 putative RNA binding site [nucleotide binding]; other site 572480006854 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 572480006855 homopentamer interface [polypeptide binding]; other site 572480006856 active site 572480006857 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 572480006858 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572480006859 TrkA-N domain; Region: TrkA_N; pfam02254 572480006860 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572480006861 TrkA-N domain; Region: TrkA_N; pfam02254 572480006862 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 572480006863 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 572480006864 active site 572480006865 FMN binding site [chemical binding]; other site 572480006866 substrate binding site [chemical binding]; other site 572480006867 3Fe-4S cluster binding site [ion binding]; other site 572480006868 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 572480006869 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 572480006870 hinge; other site 572480006871 active site 572480006872 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 572480006873 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 572480006874 active site 572480006875 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480006876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480006877 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 572480006878 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 572480006879 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 572480006880 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 572480006881 Uncharacterized conserved protein [Function unknown]; Region: COG1739 572480006882 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 572480006883 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 572480006884 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 572480006885 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 572480006886 RNA binding surface [nucleotide binding]; other site 572480006887 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 572480006888 S-adenosylmethionine binding site [chemical binding]; other site 572480006889 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 572480006890 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480006891 active site 572480006892 nucleotide binding site [chemical binding]; other site 572480006893 HIGH motif; other site 572480006894 KMSKS motif; other site 572480006895 Riboflavin kinase; Region: Flavokinase; smart00904 572480006896 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572480006897 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 572480006898 S-adenosylmethionine binding site [chemical binding]; other site 572480006899 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 572480006900 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 572480006901 catalytic triad [active] 572480006902 FAD binding domain; Region: FAD_binding_4; pfam01565 572480006903 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 572480006904 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 572480006905 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 572480006906 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 572480006907 dimer interface [polypeptide binding]; other site 572480006908 active site 572480006909 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 572480006910 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 572480006911 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 572480006912 active site 572480006913 Phosphopantetheine attachment site; Region: PP-binding; cl09936 572480006914 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 572480006915 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 572480006916 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 572480006917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480006918 Walker A/P-loop; other site 572480006919 ATP binding site [chemical binding]; other site 572480006920 Q-loop/lid; other site 572480006921 ABC transporter signature motif; other site 572480006922 Walker B; other site 572480006923 D-loop; other site 572480006924 H-loop/switch region; other site 572480006925 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 572480006926 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 572480006927 acyl-activating enzyme (AAE) consensus motif; other site 572480006928 AMP binding site [chemical binding]; other site 572480006929 active site 572480006930 CoA binding site [chemical binding]; other site 572480006931 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 572480006932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480006933 NAD(P) binding site [chemical binding]; other site 572480006934 active site 572480006935 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 572480006936 active sites [active] 572480006937 tetramer interface [polypeptide binding]; other site 572480006938 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 572480006939 putative acyl-acceptor binding pocket; other site 572480006940 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 572480006941 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 572480006942 Ligand binding site; other site 572480006943 Putative Catalytic site; other site 572480006944 DXD motif; other site 572480006945 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 572480006946 active site 2 [active] 572480006947 Phosphopantetheine attachment site; Region: PP-binding; cl09936 572480006948 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 572480006949 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 572480006950 dimer interface [polypeptide binding]; other site 572480006951 active site 572480006952 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 572480006953 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 572480006954 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 572480006955 S-adenosylmethionine binding site [chemical binding]; other site 572480006956 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 572480006957 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 572480006958 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 572480006959 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 572480006960 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 572480006961 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 572480006962 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 572480006963 binding surface 572480006964 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 572480006965 TPR motif; other site 572480006966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572480006967 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572480006968 ligand binding site [chemical binding]; other site 572480006969 translocation protein TolB; Provisional; Region: tolB; PRK04043 572480006970 TolB amino-terminal domain; Region: TolB_N; pfam04052 572480006971 TonB C terminal; Region: TonB_2; pfam13103 572480006972 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572480006973 TolR protein; Region: tolR; TIGR02801 572480006974 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 572480006975 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 572480006976 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 572480006977 gamma subunit interface [polypeptide binding]; other site 572480006978 epsilon subunit interface [polypeptide binding]; other site 572480006979 LBP interface [polypeptide binding]; other site 572480006980 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 572480006981 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572480006982 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 572480006983 alpha subunit interaction interface [polypeptide binding]; other site 572480006984 Walker A motif; other site 572480006985 ATP binding site [chemical binding]; other site 572480006986 Walker B motif; other site 572480006987 inhibitor binding site; inhibition site 572480006988 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572480006989 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 572480006990 core domain interface [polypeptide binding]; other site 572480006991 delta subunit interface [polypeptide binding]; other site 572480006992 epsilon subunit interface [polypeptide binding]; other site 572480006993 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 572480006994 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572480006995 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 572480006996 beta subunit interaction interface [polypeptide binding]; other site 572480006997 Walker A motif; other site 572480006998 ATP binding site [chemical binding]; other site 572480006999 Walker B motif; other site 572480007000 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572480007001 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 572480007002 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 572480007003 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 572480007004 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 572480007005 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 572480007006 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 572480007007 ParB-like nuclease domain; Region: ParB; smart00470 572480007008 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 572480007009 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 572480007010 P-loop; other site 572480007011 Magnesium ion binding site [ion binding]; other site 572480007012 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 572480007013 Magnesium ion binding site [ion binding]; other site 572480007014 biotin--protein ligase; Provisional; Region: PRK08477 572480007015 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 572480007016 Predicted permeases [General function prediction only]; Region: COG0679 572480007017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007018 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 572480007019 ATP binding site [chemical binding]; other site 572480007020 Mg2+ binding site [ion binding]; other site 572480007021 G-X-G motif; other site 572480007022 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 572480007023 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 572480007024 putative active site [active] 572480007025 substrate binding site [chemical binding]; other site 572480007026 putative cosubstrate binding site; other site 572480007027 catalytic site [active] 572480007028 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 572480007029 substrate binding site [chemical binding]; other site 572480007030 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 572480007031 nucleotide binding site [chemical binding]; other site 572480007032 homotetrameric interface [polypeptide binding]; other site 572480007033 putative phosphate binding site [ion binding]; other site 572480007034 putative allosteric binding site; other site 572480007035 GTPase CgtA; Reviewed; Region: obgE; PRK12299 572480007036 GTP1/OBG; Region: GTP1_OBG; pfam01018 572480007037 Obg GTPase; Region: Obg; cd01898 572480007038 G1 box; other site 572480007039 GTP/Mg2+ binding site [chemical binding]; other site 572480007040 Switch I region; other site 572480007041 G2 box; other site 572480007042 G3 box; other site 572480007043 Switch II region; other site 572480007044 G4 box; other site 572480007045 G5 box; other site 572480007046 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 572480007047 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 572480007048 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 572480007049 homotrimer interaction site [polypeptide binding]; other site 572480007050 putative active site [active] 572480007051 DNA primase, catalytic core; Region: dnaG; TIGR01391 572480007052 CHC2 zinc finger; Region: zf-CHC2; pfam01807 572480007053 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 572480007054 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 572480007055 active site 572480007056 metal binding site [ion binding]; metal-binding site 572480007057 interdomain interaction site; other site 572480007058 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 572480007059 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 572480007060 binding surface 572480007061 TPR motif; other site 572480007062 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 572480007063 RNA/DNA hybrid binding site [nucleotide binding]; other site 572480007064 active site 572480007065 ribonuclease III; Reviewed; Region: rnc; PRK00102 572480007066 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 572480007067 dimerization interface [polypeptide binding]; other site 572480007068 active site 572480007069 metal binding site [ion binding]; metal-binding site 572480007070 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 572480007071 dsRNA binding site [nucleotide binding]; other site 572480007072 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 572480007073 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 572480007074 Tetramer interface [polypeptide binding]; other site 572480007075 active site 572480007076 FMN-binding site [chemical binding]; other site 572480007077 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 572480007078 M48 family peptidase; Provisional; Region: PRK03001 572480007079 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 572480007080 catalytic core [active] 572480007081 flavoprotein, HI0933 family; Region: TIGR00275 572480007082 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 572480007083 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 572480007084 trmE is a tRNA modification GTPase; Region: trmE; cd04164 572480007085 G1 box; other site 572480007086 GTP/Mg2+ binding site [chemical binding]; other site 572480007087 Switch I region; other site 572480007088 G2 box; other site 572480007089 Switch II region; other site 572480007090 G3 box; other site 572480007091 G4 box; other site 572480007092 G5 box; other site 572480007093 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 572480007094 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 572480007095 membrane protein insertase; Provisional; Region: PRK01318 572480007096 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 572480007097 Haemolytic domain; Region: Haemolytic; pfam01809 572480007098 Ribonuclease P; Region: Ribonuclease_P; pfam00825 572480007099 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 572480007100 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 572480007101 Clp amino terminal domain; Region: Clp_N; pfam02861 572480007102 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 572480007103 Walker A motif; other site 572480007104 ATP binding site [chemical binding]; other site 572480007105 Walker B motif; other site 572480007106 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 572480007107 Walker A motif; other site 572480007108 ATP binding site [chemical binding]; other site 572480007109 Walker B motif; other site 572480007110 arginine finger; other site 572480007111 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480007112 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 572480007113 RNA/DNA hybrid binding site [nucleotide binding]; other site 572480007114 active site 572480007115 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 572480007116 Domain of unknown function DUF77; Region: DUF77; pfam01910 572480007117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480007118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480007119 metal binding site [ion binding]; metal-binding site 572480007120 active site 572480007121 I-site; other site 572480007122 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480007123 PAS fold; Region: PAS_3; pfam08447 572480007124 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007125 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 572480007126 dimer interface [polypeptide binding]; other site 572480007127 phosphorylation site [posttranslational modification] 572480007128 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 572480007129 ATP binding site [chemical binding]; other site 572480007130 Mg2+ binding site [ion binding]; other site 572480007131 G-X-G motif; other site 572480007132 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 572480007133 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 572480007134 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 572480007135 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 572480007136 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 572480007137 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 572480007138 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572480007139 MarR family; Region: MarR; pfam01047 572480007140 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 572480007141 catalytic residues [active] 572480007142 dimer interface [polypeptide binding]; other site 572480007143 Predicted membrane protein [Function unknown]; Region: COG2259 572480007144 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 572480007145 putative active site [active] 572480007146 putative CoA binding site [chemical binding]; other site 572480007147 nudix motif; other site 572480007148 metal binding site [ion binding]; metal-binding site 572480007149 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 572480007150 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 572480007151 inhibitor-cofactor binding pocket; inhibition site 572480007152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480007153 catalytic residue [active] 572480007154 NMT1/THI5 like; Region: NMT1; pfam09084 572480007155 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480007156 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 572480007157 substrate binding pocket [chemical binding]; other site 572480007158 membrane-bound complex binding site; other site 572480007159 hinge residues; other site 572480007160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007161 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; cl00080 572480007162 dimer interface [polypeptide binding]; other site 572480007163 phosphorylation site [posttranslational modification] 572480007164 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 572480007165 ATP binding site [chemical binding]; other site 572480007166 Mg2+ binding site [ion binding]; other site 572480007167 G-X-G motif; other site 572480007168 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 572480007169 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480007170 putative substrate translocation pore; other site 572480007171 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572480007172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480007173 dimer interface [polypeptide binding]; other site 572480007174 putative CheW interface [polypeptide binding]; other site 572480007175 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 572480007176 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480007177 BCCT family transporter; Region: BCCT; cl00569 572480007178 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 572480007179 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480007180 Coenzyme A binding pocket [chemical binding]; other site 572480007181 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 572480007182 fructuronate transporter; Provisional; Region: PRK10034; cl15264 572480007183 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 572480007184 SurA N-terminal domain; Region: SurA_N; pfam09312 572480007185 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480007186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480007187 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 572480007188 integral membrane protein; Region: integ_memb_HG; TIGR03954 572480007189 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480007190 active site residue [active] 572480007191 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 572480007192 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 572480007193 purine monophosphate binding site [chemical binding]; other site 572480007194 dimer interface [polypeptide binding]; other site 572480007195 putative catalytic residues [active] 572480007196 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 572480007197 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 572480007198 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480007199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480007200 metal binding site [ion binding]; metal-binding site 572480007201 active site 572480007202 I-site; other site 572480007203 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480007204 Family description; Region: DsbD_2; pfam13386 572480007205 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 572480007206 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 572480007207 dimerization interface [polypeptide binding]; other site 572480007208 ATP binding site [chemical binding]; other site 572480007209 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 572480007210 dimerization interface [polypeptide binding]; other site 572480007211 ATP binding site [chemical binding]; other site 572480007212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 572480007213 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 572480007214 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572480007215 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480007216 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572480007217 MgtE intracellular N domain; Region: MgtE_N; pfam03448 572480007218 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 572480007219 Divalent cation transporter; Region: MgtE; pfam01769 572480007220 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 572480007221 homodecamer interface [polypeptide binding]; other site 572480007222 GTP cyclohydrolase I; Provisional; Region: PLN03044 572480007223 active site 572480007224 putative catalytic site residues [active] 572480007225 zinc binding site [ion binding]; other site 572480007226 GTP-CH-I/GFRP interaction surface; other site 572480007227 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572480007228 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572480007229 Type II/IV secretion system protein; Region: T2SE; pfam00437 572480007230 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 572480007231 Walker A motif; other site 572480007232 ATP binding site [chemical binding]; other site 572480007233 Walker B motif; other site 572480007234 GTPase Era; Reviewed; Region: era; PRK00089 572480007235 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 572480007236 G1 box; other site 572480007237 GTP/Mg2+ binding site [chemical binding]; other site 572480007238 Switch I region; other site 572480007239 G2 box; other site 572480007240 Switch II region; other site 572480007241 G3 box; other site 572480007242 G4 box; other site 572480007243 G5 box; other site 572480007244 KH domain; Region: KH_2; pfam07650 572480007245 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 572480007246 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572480007247 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 572480007248 Walker A motif; other site 572480007249 ATP binding site [chemical binding]; other site 572480007250 Walker B motif; other site 572480007251 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 572480007252 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 572480007253 active site 572480007254 catalytic residues [active] 572480007255 metal binding site [ion binding]; metal-binding site 572480007256 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 572480007257 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 572480007258 oligomer interface [polypeptide binding]; other site 572480007259 active site residues [active] 572480007260 trigger factor; Provisional; Region: tig; PRK01490 572480007261 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 572480007262 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 572480007263 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 572480007264 von Willebrand factor type A domain; Region: VWA_2; pfam13519 572480007265 metal ion-dependent adhesion site (MIDAS); other site 572480007266 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 572480007267 TPR motif; other site 572480007268 binding surface 572480007269 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 572480007270 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 572480007271 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 572480007272 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 572480007273 dimer interface [polypeptide binding]; other site 572480007274 active site 572480007275 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572480007276 catalytic residues [active] 572480007277 substrate binding site [chemical binding]; other site 572480007278 Rubredoxin [Energy production and conversion]; Region: COG1773 572480007279 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 572480007280 iron binding site [ion binding]; other site 572480007281 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 572480007282 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 572480007283 NAD(P) binding pocket [chemical binding]; other site 572480007284 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 572480007285 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572480007286 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 572480007287 N-terminal domain interface [polypeptide binding]; other site 572480007288 dimer interface [polypeptide binding]; other site 572480007289 substrate binding pocket (H-site) [chemical binding]; other site 572480007290 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 572480007291 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480007292 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480007293 dimer interface [polypeptide binding]; other site 572480007294 putative CheW interface [polypeptide binding]; other site 572480007295 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 572480007296 metal binding triad [ion binding]; metal-binding site 572480007297 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 572480007298 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 572480007299 active site 572480007300 nucleophile elbow; other site 572480007301 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 572480007302 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 572480007303 HipA N-terminal domain; Region: Couple_hipA; pfam13657 572480007304 HipA-like N-terminal domain; Region: HipA_N; pfam07805 572480007305 HipA-like C-terminal domain; Region: HipA_C; pfam07804 572480007306 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 572480007307 non-specific DNA binding site [nucleotide binding]; other site 572480007308 salt bridge; other site 572480007309 sequence-specific DNA binding site [nucleotide binding]; other site 572480007310 NMT1/THI5 like; Region: NMT1; pfam09084 572480007311 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 572480007312 PAS fold; Region: PAS_4; pfam08448 572480007313 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 572480007314 putative active site [active] 572480007315 heme pocket [chemical binding]; other site 572480007316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480007317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480007318 metal binding site [ion binding]; metal-binding site 572480007319 active site 572480007320 I-site; other site 572480007321 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 572480007322 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 572480007323 ATP binding site [chemical binding]; other site 572480007324 Mg++ binding site [ion binding]; other site 572480007325 motif III; other site 572480007326 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 572480007327 nucleotide binding region [chemical binding]; other site 572480007328 ATP-binding site [chemical binding]; other site 572480007329 PAS domain; Region: PAS_9; pfam13426 572480007330 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 572480007331 putative active site [active] 572480007332 heme pocket [chemical binding]; other site 572480007333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007334 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 572480007335 ATP binding site [chemical binding]; other site 572480007336 Mg2+ binding site [ion binding]; other site 572480007337 G-X-G motif; other site 572480007338 Response regulator receiver domain; Region: Response_reg; pfam00072 572480007339 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 572480007340 active site 572480007341 phosphorylation site [posttranslational modification] 572480007342 intermolecular recognition site; other site 572480007343 dimerization interface [polypeptide binding]; other site 572480007344 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480007345 dimer interface [polypeptide binding]; other site 572480007346 putative CheW interface [polypeptide binding]; other site 572480007347 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 572480007348 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 572480007349 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572480007350 metal binding site 2 [ion binding]; metal-binding site 572480007351 putative DNA binding helix; other site 572480007352 metal binding site 1 [ion binding]; metal-binding site 572480007353 dimer interface [polypeptide binding]; other site 572480007354 structural Zn2+ binding site [ion binding]; other site 572480007355 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572480007356 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 572480007357 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572480007358 G1 box; other site 572480007359 GTP/Mg2+ binding site [chemical binding]; other site 572480007360 Switch I region; other site 572480007361 G2 box; other site 572480007362 G3 box; other site 572480007363 Switch II region; other site 572480007364 G4 box; other site 572480007365 G5 box; other site 572480007366 Nucleoside recognition; Region: Gate; pfam07670 572480007367 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 572480007368 Nucleoside recognition; Region: Gate; pfam07670 572480007369 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 572480007370 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 572480007371 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 572480007372 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 572480007373 substrate binding site [chemical binding]; other site 572480007374 active site 572480007375 catalytic residues [active] 572480007376 heterodimer interface [polypeptide binding]; other site 572480007377 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572480007378 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 572480007379 active site 572480007380 oligomerization interface [polypeptide binding]; other site 572480007381 metal binding site [ion binding]; metal-binding site 572480007382 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 572480007383 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 572480007384 Walker A motif; other site 572480007385 ATP binding site [chemical binding]; other site 572480007386 Walker B motif; other site 572480007387 arginine finger; other site 572480007388 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 572480007389 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 572480007390 Leucine rich repeat; Region: LRR_8; pfam13855 572480007391 Leucine rich repeat; Region: LRR_8; pfam13855 572480007392 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; pfam02943 572480007393 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480007394 active site residue [active] 572480007395 Cytochrome c; Region: Cytochrom_C; cl11414 572480007396 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 572480007397 Clp amino terminal domain; Region: Clp_N; pfam02861 572480007398 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 572480007399 Walker A motif; other site 572480007400 ATP binding site [chemical binding]; other site 572480007401 Walker B motif; other site 572480007402 arginine finger; other site 572480007403 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 572480007404 Walker A motif; other site 572480007405 ATP binding site [chemical binding]; other site 572480007406 Walker B motif; other site 572480007407 arginine finger; other site 572480007408 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480007409 Uncharacterized conserved protein [Function unknown]; Region: COG2127 572480007410 AAA domain; Region: AAA_26; pfam13500 572480007411 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572480007412 aspartate kinase; Reviewed; Region: PRK09034 572480007413 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 572480007414 nucleotide binding site [chemical binding]; other site 572480007415 substrate binding site [chemical binding]; other site 572480007416 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572480007417 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572480007418 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 572480007419 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 572480007420 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 572480007421 inhibitor-cofactor binding pocket; inhibition site 572480007422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480007423 catalytic residue [active] 572480007424 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 572480007425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572480007426 Coenzyme A binding pocket [chemical binding]; other site 572480007427 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 572480007428 DNA binding residues [nucleotide binding] 572480007429 H+ Antiporter protein; Region: 2A0121; TIGR00900 572480007430 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480007431 Oxygen tolerance; Region: BatD; pfam13584 572480007432 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 572480007433 FHIPEP family; Region: FHIPEP; pfam00771 572480007434 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572480007435 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 572480007436 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 572480007437 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 572480007438 Walker A motif/ATP binding site; other site 572480007439 Walker B motif; other site 572480007440 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 572480007441 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 572480007442 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 572480007443 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 572480007444 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572480007445 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480007446 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 572480007447 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 572480007448 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 572480007449 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 572480007450 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 572480007451 Rod binding protein; Region: Rod-binding; cl01626 572480007452 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 572480007453 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572480007454 ligand binding site [chemical binding]; other site 572480007455 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 572480007456 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 572480007457 flagellar motor switch protein FliY; Validated; Region: PRK08432 572480007458 flagellar motor switch protein FliN; Region: fliN; TIGR02480 572480007459 Tetratricopeptide repeat; Region: TPR_1; pfam00515 572480007460 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 572480007461 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572480007462 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480007463 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 572480007464 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480007465 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 572480007466 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 572480007467 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 572480007468 Flagellar assembly protein FliH; Region: FliH; pfam02108 572480007469 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 572480007470 MgtE intracellular N domain; Region: MgtE_N; cl15244 572480007471 FliG C-terminal domain; Region: FliG_C; pfam01706 572480007472 Flagellar basal body M-ring protein [Cell motility and secretion]; Region: fliF; COG1766 572480007473 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 572480007474 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 572480007475 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 572480007476 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 572480007477 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 572480007478 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480007479 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 572480007480 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 572480007481 active site 572480007482 phosphorylation site [posttranslational modification] 572480007483 intermolecular recognition site; other site 572480007484 dimerization interface [polypeptide binding]; other site 572480007485 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 572480007486 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572480007487 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480007488 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 572480007489 RimM N-terminal domain; Region: RimM; pfam01782 572480007490 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 572480007491 KH domain; Region: KH_4; pfam13083 572480007492 G-X-X-G motif; other site 572480007493 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 572480007494 signal recognition particle protein; Provisional; Region: PRK10867 572480007495 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 572480007496 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 572480007497 P loop; other site 572480007498 GTP binding site [chemical binding]; other site 572480007499 Signal peptide binding domain; Region: SRP_SPB; pfam02978 572480007500 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572480007501 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572480007502 active site 572480007503 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 572480007504 Putative zinc ribbon domain; Region: DUF164; pfam02591 572480007505 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572480007506 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 572480007507 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 572480007508 dimer interface [polypeptide binding]; other site 572480007509 motif 1; other site 572480007510 active site 572480007511 motif 2; other site 572480007512 motif 3; other site 572480007513 AIR carboxylase; Region: AIRC; smart01001 572480007514 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 572480007515 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572480007516 putative acyl-acceptor binding pocket; other site 572480007517 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 572480007518 acyl-activating enzyme (AAE) consensus motif; other site 572480007519 AMP binding site [chemical binding]; other site 572480007520 active site 572480007521 CoA binding site [chemical binding]; other site 572480007522 Predicted permeases [General function prediction only]; Region: RarD; COG2962 572480007523 EamA-like transporter family; Region: EamA; pfam00892 572480007524 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 572480007525 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 572480007526 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 572480007527 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 572480007528 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 572480007529 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 572480007530 putative active site pocket [active] 572480007531 dimerization interface [polypeptide binding]; other site 572480007532 putative catalytic residue [active] 572480007533 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 572480007534 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 572480007535 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 572480007536 N-terminal plug; other site 572480007537 ligand-binding site [chemical binding]; other site 572480007538 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 572480007539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 572480007540 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 572480007541 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 572480007542 TPP-binding site [chemical binding]; other site 572480007543 dimer interface [polypeptide binding]; other site 572480007544 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 572480007545 PYR/PP interface [polypeptide binding]; other site 572480007546 dimer interface [polypeptide binding]; other site 572480007547 TPP binding site [chemical binding]; other site 572480007548 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572480007549 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007550 Ca2+ binding site [ion binding]; other site 572480007551 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007552 Ca2+ binding site [ion binding]; other site 572480007553 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007554 Ca2+ binding site [ion binding]; other site 572480007555 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007556 Ca2+ binding site [ion binding]; other site 572480007557 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007558 Ca2+ binding site [ion binding]; other site 572480007559 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007560 Ca2+ binding site [ion binding]; other site 572480007561 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 572480007562 Ca2+ binding site [ion binding]; other site 572480007563 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 572480007564 metal ion-dependent adhesion site (MIDAS); other site 572480007565 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 572480007566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007567 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 572480007568 ATP binding site [chemical binding]; other site 572480007569 Mg2+ binding site [ion binding]; other site 572480007570 G-X-G motif; other site 572480007571 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 572480007572 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 572480007573 E3 interaction surface; other site 572480007574 lipoyl attachment site [posttranslational modification]; other site 572480007575 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480007576 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 572480007577 putative active site [active] 572480007578 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 572480007579 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480007580 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 572480007581 Walker A/P-loop; other site 572480007582 ATP binding site [chemical binding]; other site 572480007583 Q-loop/lid; other site 572480007584 ABC transporter signature motif; other site 572480007585 Walker B; other site 572480007586 D-loop; other site 572480007587 H-loop/switch region; other site 572480007588 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480007589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480007590 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 572480007591 active site 572480007592 phosphorylation site [posttranslational modification] 572480007593 intermolecular recognition site; other site 572480007594 dimerization interface [polypeptide binding]; other site 572480007595 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 572480007596 DNA binding site [nucleotide binding] 572480007597 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480007598 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 572480007599 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 572480007600 VacJ like lipoprotein; Region: VacJ; cl01073 572480007601 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 572480007602 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 572480007603 NAD(P) binding site [chemical binding]; other site 572480007604 homodimer interface [polypeptide binding]; other site 572480007605 substrate binding site [chemical binding]; other site 572480007606 active site 572480007607 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 572480007608 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 572480007609 Mg++ binding site [ion binding]; other site 572480007610 putative catalytic motif [active] 572480007611 putative substrate binding site [chemical binding]; other site 572480007612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480007613 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480007614 NAD(P) binding site [chemical binding]; other site 572480007615 active site 572480007616 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 572480007617 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480007618 putative ADP-binding pocket [chemical binding]; other site 572480007619 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 572480007620 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 572480007621 active site 572480007622 dimer interface [polypeptide binding]; other site 572480007623 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 572480007624 Ligand Binding Site [chemical binding]; other site 572480007625 Molecular Tunnel; other site 572480007626 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480007627 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 572480007628 putative ADP-binding pocket [chemical binding]; other site 572480007629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480007630 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572480007631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480007632 Walker A/P-loop; other site 572480007633 ATP binding site [chemical binding]; other site 572480007634 Q-loop/lid; other site 572480007635 ABC transporter signature motif; other site 572480007636 Walker B; other site 572480007637 D-loop; other site 572480007638 H-loop/switch region; other site 572480007639 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 572480007640 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 572480007641 active site 572480007642 dimer interface [polypeptide binding]; other site 572480007643 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 572480007644 Ligand Binding Site [chemical binding]; other site 572480007645 Molecular Tunnel; other site 572480007646 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480007647 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 572480007648 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480007649 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 572480007650 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 572480007651 extended (e) SDRs; Region: SDR_e; cd08946 572480007652 NAD(P) binding site [chemical binding]; other site 572480007653 active site 572480007654 substrate binding site [chemical binding]; other site 572480007655 WxcM-like, C-terminal; Region: FdtA; pfam05523 572480007656 Methyltransferase domain; Region: Methyltransf_12; pfam08242 572480007657 S-adenosylmethionine binding site [chemical binding]; other site 572480007658 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480007659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480007660 NAD(P) binding site [chemical binding]; other site 572480007661 active site 572480007662 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 572480007663 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572480007664 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480007665 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 572480007666 inhibitor-cofactor binding pocket; inhibition site 572480007667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480007668 catalytic residue [active] 572480007669 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 572480007670 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572480007671 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 572480007672 S-adenosylmethionine binding site [chemical binding]; other site 572480007673 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 572480007674 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 572480007675 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 572480007676 NAD binding site [chemical binding]; other site 572480007677 substrate binding site [chemical binding]; other site 572480007678 homodimer interface [polypeptide binding]; other site 572480007679 active site 572480007680 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 572480007681 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 572480007682 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 572480007683 substrate binding site; other site 572480007684 tetramer interface; other site 572480007685 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 572480007686 Radical SAM superfamily; Region: Radical_SAM; pfam04055 572480007687 FeS/SAM binding site; other site 572480007688 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 572480007689 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 572480007690 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 572480007691 putative trimer interface [polypeptide binding]; other site 572480007692 putative CoA binding site [chemical binding]; other site 572480007693 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 572480007694 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 572480007695 active site 572480007696 dimer interface [polypeptide binding]; other site 572480007697 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 572480007698 Ligand Binding Site [chemical binding]; other site 572480007699 Molecular Tunnel; other site 572480007700 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480007701 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 572480007702 inhibitor-cofactor binding pocket; inhibition site 572480007703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480007704 catalytic residue [active] 572480007705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480007706 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480007707 NAD(P) binding site [chemical binding]; other site 572480007708 active site 572480007709 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480007710 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 572480007711 inhibitor-cofactor binding pocket; inhibition site 572480007712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480007713 catalytic residue [active] 572480007714 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 572480007715 putative trimer interface [polypeptide binding]; other site 572480007716 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 572480007717 putative CoA binding site [chemical binding]; other site 572480007718 putative trimer interface [polypeptide binding]; other site 572480007719 putative active site [active] 572480007720 putative substrate binding site [chemical binding]; other site 572480007721 putative CoA binding site [chemical binding]; other site 572480007722 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572480007723 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572480007724 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 572480007725 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 572480007726 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 572480007727 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572480007728 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 572480007729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480007730 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 572480007731 putative NAD(P) binding site [chemical binding]; other site 572480007732 active site 572480007733 putative substrate binding site [chemical binding]; other site 572480007734 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 572480007735 four helix bundle protein; Region: TIGR02436 572480007736 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 572480007737 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572480007738 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572480007739 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 572480007740 Chain length determinant protein; Region: Wzz; pfam02706 572480007741 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 572480007742 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 572480007743 NAD binding site [chemical binding]; other site 572480007744 homodimer interface [polypeptide binding]; other site 572480007745 active site 572480007746 substrate binding site [chemical binding]; other site 572480007747 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 572480007748 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 572480007749 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 572480007750 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 572480007751 protein binding site [polypeptide binding]; other site 572480007752 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 572480007753 protein binding site [polypeptide binding]; other site 572480007754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480007755 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 572480007756 active site 572480007757 phosphorylation site [posttranslational modification] 572480007758 intermolecular recognition site; other site 572480007759 dimerization interface [polypeptide binding]; other site 572480007760 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 572480007761 DNA binding site [nucleotide binding] 572480007762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480007763 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 572480007764 dimerization interface [polypeptide binding]; other site 572480007765 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 572480007766 dimer interface [polypeptide binding]; other site 572480007767 phosphorylation site [posttranslational modification] 572480007768 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 572480007769 ATP binding site [chemical binding]; other site 572480007770 Mg2+ binding site [ion binding]; other site 572480007771 G-X-G motif; other site 572480007772 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 572480007773 Peptidase family U32; Region: Peptidase_U32; pfam01136 572480007774 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 572480007775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480007776 Walker A/P-loop; other site 572480007777 ATP binding site [chemical binding]; other site 572480007778 Q-loop/lid; other site 572480007779 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 572480007780 ABC transporter signature motif; other site 572480007781 Walker B; other site 572480007782 D-loop; other site 572480007783 H-loop/switch region; other site 572480007784 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 572480007785 ATP-NAD kinase; Region: NAD_kinase; pfam01513 572480007786 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 572480007787 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480007788 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480007789 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 572480007790 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 572480007791 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572480007792 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480007793 Walker A/P-loop; other site 572480007794 ATP binding site [chemical binding]; other site 572480007795 Q-loop/lid; other site 572480007796 ABC transporter signature motif; other site 572480007797 Walker B; other site 572480007798 D-loop; other site 572480007799 H-loop/switch region; other site 572480007800 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480007801 elongation factor G; Reviewed; Region: PRK00007 572480007802 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 572480007803 G1 box; other site 572480007804 putative GEF interaction site [polypeptide binding]; other site 572480007805 GTP/Mg2+ binding site [chemical binding]; other site 572480007806 Switch I region; other site 572480007807 G2 box; other site 572480007808 G3 box; other site 572480007809 Switch II region; other site 572480007810 G4 box; other site 572480007811 G5 box; other site 572480007812 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 572480007813 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 572480007814 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 572480007815 30S ribosomal protein S7; Validated; Region: PRK05302 572480007816 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 572480007817 S17 interaction site [polypeptide binding]; other site 572480007818 S8 interaction site; other site 572480007819 16S rRNA interaction site [nucleotide binding]; other site 572480007820 streptomycin interaction site [chemical binding]; other site 572480007821 23S rRNA interaction site [nucleotide binding]; other site 572480007822 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 572480007823 Cache domain; Region: Cache_1; pfam02743 572480007824 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480007825 dimer interface [polypeptide binding]; other site 572480007826 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 572480007827 putative CheW interface [polypeptide binding]; other site 572480007828 MFS transport protein AraJ; Provisional; Region: PRK10091 572480007829 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 572480007830 putative substrate translocation pore; other site 572480007831 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 572480007832 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 572480007833 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 572480007834 S-adenosylmethionine binding site [chemical binding]; other site 572480007835 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 572480007836 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572480007837 putative catalytic site [active] 572480007838 putative metal binding site [ion binding]; other site 572480007839 putative phosphate binding site [ion binding]; other site 572480007840 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572480007841 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 572480007842 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 572480007843 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 572480007844 lipoyl synthase; Provisional; Region: PRK05481 572480007845 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 572480007846 FeS/SAM binding site; other site 572480007847 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 572480007848 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 572480007849 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 572480007850 dimer interface [polypeptide binding]; other site 572480007851 TPP-binding site [chemical binding]; other site 572480007852 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 572480007853 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 572480007854 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 572480007855 E3 interaction surface; other site 572480007856 lipoyl attachment site [posttranslational modification]; other site 572480007857 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 572480007858 E3 interaction surface; other site 572480007859 lipoyl attachment site [posttranslational modification]; other site 572480007860 e3 binding domain; Region: E3_binding; pfam02817 572480007861 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 572480007862 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 572480007863 E3 interaction surface; other site 572480007864 lipoyl attachment site [posttranslational modification]; other site 572480007865 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 572480007866 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572480007867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572480007868 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572480007869 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 572480007870 active site 572480007871 catalytic triad [active] 572480007872 oxyanion hole [active] 572480007873 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572480007874 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 572480007875 Walker A/P-loop; other site 572480007876 ATP binding site [chemical binding]; other site 572480007877 Q-loop/lid; other site 572480007878 ABC transporter signature motif; other site 572480007879 Walker B; other site 572480007880 D-loop; other site 572480007881 H-loop/switch region; other site 572480007882 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 572480007883 cobalt transport protein CbiM; Validated; Region: PRK06265 572480007884 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 572480007885 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 572480007886 YCII-related domain; Region: YCII; cl00999 572480007887 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 572480007888 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 572480007889 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 572480007890 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 572480007891 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 572480007892 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 572480007893 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572480007894 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 572480007895 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572480007896 Peptidase family M23; Region: Peptidase_M23; pfam01551 572480007897 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 572480007898 DNA binding site [nucleotide binding] 572480007899 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 572480007900 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 572480007901 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 572480007902 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 572480007903 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 572480007904 RPB3 interaction site [polypeptide binding]; other site 572480007905 RPB1 interaction site [polypeptide binding]; other site 572480007906 RPB11 interaction site [polypeptide binding]; other site 572480007907 RPB10 interaction site [polypeptide binding]; other site 572480007908 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 572480007909 L11 interface [polypeptide binding]; other site 572480007910 putative EF-Tu interaction site [polypeptide binding]; other site 572480007911 putative EF-G interaction site [polypeptide binding]; other site 572480007912 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 572480007913 23S rRNA interface [nucleotide binding]; other site 572480007914 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 572480007915 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 572480007916 mRNA/rRNA interface [nucleotide binding]; other site 572480007917 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 572480007918 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 572480007919 23S rRNA interface [nucleotide binding]; other site 572480007920 L7/L12 interface [polypeptide binding]; other site 572480007921 putative thiostrepton binding site; other site 572480007922 L25 interface [polypeptide binding]; other site 572480007923 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 572480007924 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 572480007925 putative homodimer interface [polypeptide binding]; other site 572480007926 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 572480007927 heterodimer interface [polypeptide binding]; other site 572480007928 homodimer interface [polypeptide binding]; other site 572480007929 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 572480007930 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 572480007931 elongation factor Tu; Reviewed; Region: PRK00049 572480007932 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 572480007933 G1 box; other site 572480007934 GEF interaction site [polypeptide binding]; other site 572480007935 GTP/Mg2+ binding site [chemical binding]; other site 572480007936 Switch I region; other site 572480007937 G2 box; other site 572480007938 G3 box; other site 572480007939 Switch II region; other site 572480007940 G4 box; other site 572480007941 G5 box; other site 572480007942 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 572480007943 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 572480007944 Antibiotic Binding Site [chemical binding]; other site 572480007945 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 572480007946 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572480007947 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572480007948 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 572480007949 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 572480007950 Mg++ binding site [ion binding]; other site 572480007951 putative catalytic motif [active] 572480007952 putative substrate binding site [chemical binding]; other site 572480007953 phosphoglyceromutase; Provisional; Region: PRK05434 572480007954 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 572480007955 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 572480007956 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572480007957 Walker A/P-loop; other site 572480007958 ATP binding site [chemical binding]; other site 572480007959 Q-loop/lid; other site 572480007960 ABC transporter signature motif; other site 572480007961 Walker B; other site 572480007962 D-loop; other site 572480007963 H-loop/switch region; other site 572480007964 Transglycosylase; Region: Transgly; pfam00912 572480007965 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 572480007966 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 572480007967 glutamine synthetase, type I; Region: GlnA; TIGR00653 572480007968 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 572480007969 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 572480007970 histidinol-phosphatase; Provisional; Region: PRK07328 572480007971 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 572480007972 active site 572480007973 dimer interface [polypeptide binding]; other site 572480007974 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 572480007975 MoaE homodimer interface [polypeptide binding]; other site 572480007976 MoaD interaction [polypeptide binding]; other site 572480007977 active site residues [active] 572480007978 ThiS family; Region: ThiS; pfam02597 572480007979 charged pocket; other site 572480007980 hydrophobic patch; other site 572480007981 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 572480007982 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 572480007983 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 572480007984 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 572480007985 active site 572480007986 homodimer interface [polypeptide binding]; other site 572480007987 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 572480007988 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 572480007989 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572480007990 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572480007991 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 572480007992 active site 572480007993 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 572480007994 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 572480007995 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 572480007996 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 572480007997 glutamine binding [chemical binding]; other site 572480007998 catalytic triad [active] 572480007999 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 572480008000 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 572480008001 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 572480008002 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 572480008003 dimer interface [polypeptide binding]; other site 572480008004 conserved gate region; other site 572480008005 putative PBP binding loops; other site 572480008006 ABC-ATPase subunit interface; other site 572480008007 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 572480008008 dimer interface [polypeptide binding]; other site 572480008009 conserved gate region; other site 572480008010 ABC-ATPase subunit interface; other site 572480008011 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 572480008012 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 572480008013 Walker A/P-loop; other site 572480008014 ATP binding site [chemical binding]; other site 572480008015 Q-loop/lid; other site 572480008016 ABC transporter signature motif; other site 572480008017 Walker B; other site 572480008018 D-loop; other site 572480008019 H-loop/switch region; other site 572480008020 FRG domain; Region: FRG; pfam08867 572480008021 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 572480008022 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 572480008023 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 572480008024 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 572480008025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008026 homodimer interface [polypeptide binding]; other site 572480008027 catalytic residue [active] 572480008028 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 572480008029 NADH dehydrogenase subunit B; Validated; Region: PRK06411 572480008030 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 572480008031 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 572480008032 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 572480008033 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 572480008034 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 572480008035 putative dimer interface [polypeptide binding]; other site 572480008036 [2Fe-2S] cluster binding site [ion binding]; other site 572480008037 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 572480008038 SLBB domain; Region: SLBB; pfam10531 572480008039 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 572480008040 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 572480008041 Citrate synthase; Region: Citrate_synt; pfam00285 572480008042 oxalacetate binding site [chemical binding]; other site 572480008043 citrylCoA binding site [chemical binding]; other site 572480008044 coenzyme A binding site [chemical binding]; other site 572480008045 catalytic triad [active] 572480008046 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 572480008047 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 572480008048 catalytic loop [active] 572480008049 iron binding site [ion binding]; other site 572480008050 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572480008051 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480008052 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480008053 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 572480008054 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 572480008055 4Fe-4S binding domain; Region: Fer4; pfam00037 572480008056 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 572480008057 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 572480008058 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 572480008059 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 572480008060 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480008061 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 572480008062 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480008063 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 572480008064 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480008065 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 572480008066 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 572480008067 Iron-sulfur protein interface; other site 572480008068 proximal heme binding site [chemical binding]; other site 572480008069 distal heme binding site [chemical binding]; other site 572480008070 dimer interface [polypeptide binding]; other site 572480008071 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 572480008072 L-aspartate oxidase; Provisional; Region: PRK06175 572480008073 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572480008074 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 572480008075 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 572480008076 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 572480008077 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 572480008078 Dynamin family; Region: Dynamin_N; pfam00350 572480008079 G1 box; other site 572480008080 GTP/Mg2+ binding site [chemical binding]; other site 572480008081 G2 box; other site 572480008082 Switch I region; other site 572480008083 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 572480008084 G3 box; other site 572480008085 Switch II region; other site 572480008086 GTP/Mg2+ binding site [chemical binding]; other site 572480008087 G4 box; other site 572480008088 G5 box; other site 572480008089 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 572480008090 Dynamin family; Region: Dynamin_N; pfam00350 572480008091 G1 box; other site 572480008092 GTP/Mg2+ binding site [chemical binding]; other site 572480008093 G2 box; other site 572480008094 Switch I region; other site 572480008095 G3 box; other site 572480008096 Switch II region; other site 572480008097 G4 box; other site 572480008098 G5 box; other site 572480008099 Predicted transcriptional regulator [Transcription]; Region: COG2932 572480008100 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 572480008101 Catalytic site [active] 572480008102 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572480008103 metal binding site 2 [ion binding]; metal-binding site 572480008104 putative DNA binding helix; other site 572480008105 metal binding site 1 [ion binding]; metal-binding site 572480008106 dimer interface [polypeptide binding]; other site 572480008107 structural Zn2+ binding site [ion binding]; other site 572480008108 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572480008109 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 572480008110 diiron binding motif [ion binding]; other site 572480008111 YtxH-like protein; Region: YtxH; cl02079 572480008112 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 572480008113 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572480008114 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572480008115 flavodoxin FldA; Validated; Region: PRK09267 572480008116 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 572480008117 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 572480008118 CoA-ligase; Region: Ligase_CoA; pfam00549 572480008119 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 572480008120 CoA binding domain; Region: CoA_binding; smart00881 572480008121 CoA-ligase; Region: Ligase_CoA; pfam00549 572480008122 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 572480008123 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 572480008124 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 572480008125 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 572480008126 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 572480008127 RNA binding site [nucleotide binding]; other site 572480008128 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 572480008129 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 572480008130 putative active site [active] 572480008131 metal binding site [ion binding]; metal-binding site 572480008132 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 572480008133 active site 2 [active] 572480008134 active site 1 [active] 572480008135 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 572480008136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480008137 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 572480008138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572480008139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572480008140 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 572480008141 dimerization interface [polypeptide binding]; other site 572480008142 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 572480008143 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480008144 putative substrate translocation pore; other site 572480008145 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 572480008146 active site 1 [active] 572480008147 dimer interface [polypeptide binding]; other site 572480008148 hexamer interface [polypeptide binding]; other site 572480008149 active site 2 [active] 572480008150 HPP family; Region: HPP; pfam04982 572480008151 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 572480008152 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 572480008153 folate binding site [chemical binding]; other site 572480008154 NADP+ binding site [chemical binding]; other site 572480008155 thymidylate synthase; Reviewed; Region: thyA; PRK01827 572480008156 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 572480008157 dimerization interface [polypeptide binding]; other site 572480008158 active site 572480008159 Lysine efflux permease [General function prediction only]; Region: COG1279 572480008160 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 572480008161 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572480008162 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 572480008163 dimer interface [polypeptide binding]; other site 572480008164 conserved gate region; other site 572480008165 putative PBP binding loops; other site 572480008166 ABC-ATPase subunit interface; other site 572480008167 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480008168 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 572480008169 substrate binding pocket [chemical binding]; other site 572480008170 membrane-bound complex binding site; other site 572480008171 hinge residues; other site 572480008172 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572480008173 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572480008174 Walker A/P-loop; other site 572480008175 ATP binding site [chemical binding]; other site 572480008176 Q-loop/lid; other site 572480008177 ABC transporter signature motif; other site 572480008178 Walker B; other site 572480008179 D-loop; other site 572480008180 H-loop/switch region; other site 572480008181 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480008182 EamA-like transporter family; Region: EamA; pfam00892 572480008183 allophanate hydrolase; Provisional; Region: PRK08186 572480008184 Amidase; Region: Amidase; cl11426 572480008185 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572480008186 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 572480008187 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572480008188 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 572480008189 dimer interface [polypeptide binding]; other site 572480008190 conserved gate region; other site 572480008191 putative PBP binding loops; other site 572480008192 ABC-ATPase subunit interface; other site 572480008193 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 572480008194 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 572480008195 dimer interface [polypeptide binding]; other site 572480008196 conserved gate region; other site 572480008197 putative PBP binding loops; other site 572480008198 ABC-ATPase subunit interface; other site 572480008199 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 572480008200 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572480008201 Walker A/P-loop; other site 572480008202 ATP binding site [chemical binding]; other site 572480008203 Q-loop/lid; other site 572480008204 ABC transporter signature motif; other site 572480008205 Walker B; other site 572480008206 D-loop; other site 572480008207 H-loop/switch region; other site 572480008208 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572480008209 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572480008210 Walker A/P-loop; other site 572480008211 ATP binding site [chemical binding]; other site 572480008212 Q-loop/lid; other site 572480008213 ABC transporter signature motif; other site 572480008214 Walker B; other site 572480008215 D-loop; other site 572480008216 H-loop/switch region; other site 572480008217 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572480008218 Response regulator receiver domain; Region: Response_reg; pfam00072 572480008219 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 572480008220 active site 572480008221 phosphorylation site [posttranslational modification] 572480008222 intermolecular recognition site; other site 572480008223 dimerization interface [polypeptide binding]; other site 572480008224 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480008225 DNA binding site [nucleotide binding] 572480008226 CHASE domain; Region: CHASE; pfam03924 572480008227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480008228 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 572480008229 ATP binding site [chemical binding]; other site 572480008230 Mg2+ binding site [ion binding]; other site 572480008231 G-X-G motif; other site 572480008232 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 572480008233 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 572480008234 ATP binding site [chemical binding]; other site 572480008235 putative Mg++ binding site [ion binding]; other site 572480008236 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 572480008237 nucleotide binding region [chemical binding]; other site 572480008238 ATP-binding site [chemical binding]; other site 572480008239 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 572480008240 HRDC domain; Region: HRDC; pfam00570 572480008241 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480008242 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 572480008243 S-adenosylmethionine binding site [chemical binding]; other site 572480008244 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480008245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480008246 metal binding site [ion binding]; metal-binding site 572480008247 active site 572480008248 I-site; other site 572480008249 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572480008250 Predicted flavoprotein [General function prediction only]; Region: COG0431 572480008251 Predicted transcriptional regulators [Transcription]; Region: COG1733 572480008252 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572480008253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480008254 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480008255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480008256 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 572480008257 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 572480008258 Sodium Bile acid symporter family; Region: SBF; pfam01758 572480008259 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 572480008260 Sodium Bile acid symporter family; Region: SBF; cl17470 572480008261 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 572480008262 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 572480008263 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 572480008264 Isochorismatase family; Region: Isochorismatase; pfam00857 572480008265 catalytic triad [active] 572480008266 conserved cis-peptide bond; other site 572480008267 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 572480008268 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 572480008269 NAD binding site [chemical binding]; other site 572480008270 EamA-like transporter family; Region: EamA; pfam00892 572480008271 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572480008272 EamA-like transporter family; Region: EamA; pfam00892 572480008273 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572480008274 EamA-like transporter family; Region: EamA; pfam00892 572480008275 EamA-like transporter family; Region: EamA; pfam00892 572480008276 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572480008277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572480008278 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 572480008279 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 572480008280 tetramer interface [polypeptide binding]; other site 572480008281 active site 572480008282 Mg2+/Mn2+ binding site [ion binding]; other site 572480008283 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 572480008284 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 572480008285 dimer interface [polypeptide binding]; other site 572480008286 active site 572480008287 citrylCoA binding site [chemical binding]; other site 572480008288 oxalacetate/citrate binding site [chemical binding]; other site 572480008289 coenzyme A binding site [chemical binding]; other site 572480008290 catalytic triad [active] 572480008291 aconitate hydratase; Validated; Region: PRK09277 572480008292 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 572480008293 substrate binding site [chemical binding]; other site 572480008294 ligand binding site [chemical binding]; other site 572480008295 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 572480008296 substrate binding site [chemical binding]; other site 572480008297 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 572480008298 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 572480008299 ligand binding site [chemical binding]; other site 572480008300 active site 572480008301 UGI interface [polypeptide binding]; other site 572480008302 catalytic site [active] 572480008303 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 572480008304 Isochorismatase family; Region: Isochorismatase; pfam00857 572480008305 catalytic triad [active] 572480008306 dimer interface [polypeptide binding]; other site 572480008307 conserved cis-peptide bond; other site 572480008308 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 572480008309 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 572480008310 domain interfaces; other site 572480008311 active site 572480008312 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 572480008313 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572480008314 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 572480008315 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 572480008316 Walker A motif; other site 572480008317 ATP binding site [chemical binding]; other site 572480008318 Walker B motif; other site 572480008319 arginine finger; other site 572480008320 glutamate racemase; Provisional; Region: PRK00865 572480008321 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 572480008322 putative active site [active] 572480008323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480008324 heme pocket [chemical binding]; other site 572480008325 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 572480008326 dimer interface [polypeptide binding]; other site 572480008327 phosphorylation site [posttranslational modification] 572480008328 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 572480008329 ATP binding site [chemical binding]; other site 572480008330 Mg2+ binding site [ion binding]; other site 572480008331 G-X-G motif; other site 572480008332 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 572480008333 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 572480008334 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 572480008335 dimer interface [polypeptide binding]; other site 572480008336 conserved gate region; other site 572480008337 ABC-ATPase subunit interface; other site 572480008338 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 572480008339 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 572480008340 Walker A/P-loop; other site 572480008341 ATP binding site [chemical binding]; other site 572480008342 Q-loop/lid; other site 572480008343 ABC transporter signature motif; other site 572480008344 Walker B; other site 572480008345 D-loop; other site 572480008346 H-loop/switch region; other site 572480008347 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 572480008348 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 572480008349 putative active site [active] 572480008350 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 572480008351 PLD-like domain; Region: PLDc_2; pfam13091 572480008352 putative homodimer interface [polypeptide binding]; other site 572480008353 putative active site [active] 572480008354 catalytic site [active] 572480008355 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 572480008356 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 572480008357 ATP binding site [chemical binding]; other site 572480008358 putative Mg++ binding site [ion binding]; other site 572480008359 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 572480008360 nucleotide binding region [chemical binding]; other site 572480008361 ATP-binding site [chemical binding]; other site 572480008362 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 572480008363 transcription termination factor Rho; Provisional; Region: rho; PRK09376 572480008364 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 572480008365 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 572480008366 RNA binding site [nucleotide binding]; other site 572480008367 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 572480008368 multimer interface [polypeptide binding]; other site 572480008369 Walker A motif; other site 572480008370 ATP binding site [chemical binding]; other site 572480008371 Walker B motif; other site 572480008372 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 572480008373 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 572480008374 dimer interface [polypeptide binding]; other site 572480008375 decamer (pentamer of dimers) interface [polypeptide binding]; other site 572480008376 catalytic triad [active] 572480008377 peroxidatic and resolving cysteines [active] 572480008378 Ferredoxin [Energy production and conversion]; Region: COG1146 572480008379 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 572480008380 active site 572480008381 multimer interface [polypeptide binding]; other site 572480008382 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 572480008383 putative phosphate acyltransferase; Provisional; Region: PRK05331 572480008384 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 572480008385 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 572480008386 dimer interface [polypeptide binding]; other site 572480008387 active site 572480008388 CoA binding pocket [chemical binding]; other site 572480008389 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 572480008390 glutathione synthetase, prokaryotic; Region: glut_syn; TIGR01380 572480008391 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480008392 hypothetical protein; Provisional; Region: PRK07101 572480008393 substrate-cofactor binding pocket; other site 572480008394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008395 catalytic residue [active] 572480008396 PAS domain; Region: PAS_9; pfam13426 572480008397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480008398 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; cl00080 572480008399 dimer interface [polypeptide binding]; other site 572480008400 phosphorylation site [posttranslational modification] 572480008401 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 572480008402 ATP binding site [chemical binding]; other site 572480008403 Mg2+ binding site [ion binding]; other site 572480008404 G-X-G motif; other site 572480008405 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480008406 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 572480008407 active site 572480008408 phosphorylation site [posttranslational modification] 572480008409 intermolecular recognition site; other site 572480008410 dimerization interface [polypeptide binding]; other site 572480008411 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480008412 DNA binding site [nucleotide binding] 572480008413 para-aminobenzoate synthase component I; Validated; Region: PRK07093 572480008414 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 572480008415 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 572480008416 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 572480008417 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 572480008418 acetylornithine aminotransferase; Provisional; Region: PRK02627 572480008419 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 572480008420 inhibitor-cofactor binding pocket; inhibition site 572480008421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008422 catalytic residue [active] 572480008423 Outer membrane efflux protein; Region: OEP; pfam02321 572480008424 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 572480008425 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 572480008426 binding surface 572480008427 TPR motif; other site 572480008428 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 572480008429 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 572480008430 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 572480008431 domain interfaces; other site 572480008432 active site 572480008433 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 572480008434 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 572480008435 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 572480008436 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 572480008437 L-aspartate oxidase; Provisional; Region: PRK06175 572480008438 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 572480008439 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480008440 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 572480008441 active site 572480008442 phosphorylation site [posttranslational modification] 572480008443 intermolecular recognition site; other site 572480008444 dimerization interface [polypeptide binding]; other site 572480008445 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480008446 DNA binding site [nucleotide binding] 572480008447 Cache domain; Region: Cache_1; pfam02743 572480008448 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 572480008449 ATP binding site [chemical binding]; other site 572480008450 Mg2+ binding site [ion binding]; other site 572480008451 G-X-G motif; other site 572480008452 Uncharacterized conserved protein [Function unknown]; Region: COG1565 572480008453 Protein of unknown function (DUF779); Region: DUF779; cl01432 572480008454 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 572480008455 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480008456 NAD(P) binding site [chemical binding]; other site 572480008457 catalytic residues [active] 572480008458 Uncharacterized conserved protein [Function unknown]; Region: COG3287 572480008459 FIST N domain; Region: FIST; pfam08495 572480008460 FIST C domain; Region: FIST_C; pfam10442 572480008461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480008462 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 572480008463 dimer interface [polypeptide binding]; other site 572480008464 phosphorylation site [posttranslational modification] 572480008465 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 572480008466 ATP binding site [chemical binding]; other site 572480008467 Mg2+ binding site [ion binding]; other site 572480008468 G-X-G motif; other site 572480008469 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480008470 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 572480008471 active site 572480008472 phosphorylation site [posttranslational modification] 572480008473 intermolecular recognition site; other site 572480008474 dimerization interface [polypeptide binding]; other site 572480008475 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480008476 DNA binding site [nucleotide binding] 572480008477 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 572480008478 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572480008479 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572480008480 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 572480008481 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 572480008482 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 572480008483 FeS/SAM binding site; other site 572480008484 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 572480008485 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 572480008486 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 572480008487 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572480008488 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 572480008489 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 572480008490 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 572480008491 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 572480008492 dimer interface [polypeptide binding]; other site 572480008493 Trp docking motif [polypeptide binding]; other site 572480008494 active site 572480008495 ABC-2 type transporter; Region: ABC2_membrane; cl17235 572480008496 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 572480008497 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 572480008498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480008499 Walker A/P-loop; other site 572480008500 ATP binding site [chemical binding]; other site 572480008501 Q-loop/lid; other site 572480008502 ABC transporter signature motif; other site 572480008503 Walker B; other site 572480008504 D-loop; other site 572480008505 H-loop/switch region; other site 572480008506 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 572480008507 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 572480008508 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 572480008509 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 572480008510 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 572480008511 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 572480008512 ligand binding site [chemical binding]; other site 572480008513 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 572480008514 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 572480008515 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 572480008516 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 572480008517 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 572480008518 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 572480008519 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 572480008520 BRO family, N-terminal domain; Region: Bro-N; smart01040 572480008521 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 572480008522 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 572480008523 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 572480008524 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 572480008525 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 572480008526 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572480008527 MarR family; Region: MarR_2; pfam12802 572480008528 Protein of unknown function, DUF; Region: DUF411; cl01142 572480008529 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480008530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480008531 Walker A/P-loop; other site 572480008532 ATP binding site [chemical binding]; other site 572480008533 Q-loop/lid; other site 572480008534 ABC transporter signature motif; other site 572480008535 Walker B; other site 572480008536 D-loop; other site 572480008537 H-loop/switch region; other site 572480008538 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572480008539 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 572480008540 dimer interface [polypeptide binding]; other site 572480008541 conserved gate region; other site 572480008542 putative PBP binding loops; other site 572480008543 ABC-ATPase subunit interface; other site 572480008544 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572480008545 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 572480008546 substrate binding pocket [chemical binding]; other site 572480008547 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 572480008548 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 572480008549 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480008550 substrate binding pocket [chemical binding]; other site 572480008551 membrane-bound complex binding site; other site 572480008552 hinge residues; other site 572480008553 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 572480008554 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 572480008555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572480008556 multifunctional aminopeptidase A; Provisional; Region: PRK00913 572480008557 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 572480008558 interface (dimer of trimers) [polypeptide binding]; other site 572480008559 Substrate-binding/catalytic site; other site 572480008560 Zn-binding sites [ion binding]; other site 572480008561 Uncharacterized conserved protein [Function unknown]; Region: COG1284 572480008562 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572480008563 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 572480008564 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572480008565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572480008566 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 572480008567 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 572480008568 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 572480008569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008570 homodimer interface [polypeptide binding]; other site 572480008571 catalytic residue [active] 572480008572 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 572480008573 thiS-thiF/thiG interaction site; other site 572480008574 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 572480008575 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480008576 molybdopterin cofactor binding site; other site 572480008577 Molydopterin dinucleotide binding domain; Region: Molydop_binding; pfam01568 572480008578 molybdopterin cofactor binding site; other site 572480008579 hypothetical protein; Reviewed; Region: PRK12497 572480008580 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 572480008581 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 572480008582 Cl- selectivity filter; other site 572480008583 Cl- binding residues [ion binding]; other site 572480008584 pore gating glutamate residue; other site 572480008585 dimer interface [polypeptide binding]; other site 572480008586 Protein of unknown function (DUF502); Region: DUF502; cl01107 572480008587 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572480008588 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572480008589 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 572480008590 TrkA-N domain; Region: TrkA_N; pfam02254 572480008591 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 572480008592 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 572480008593 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480008594 catalytic residue [active] 572480008595 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 572480008596 active site clefts [active] 572480008597 zinc binding site [ion binding]; other site 572480008598 dimer interface [polypeptide binding]; other site 572480008599 hypothetical protein; Provisional; Region: PRK08444 572480008600 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 572480008601 FeS/SAM binding site; other site 572480008602 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 572480008603 putative acyl-acceptor binding pocket; other site 572480008604 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572480008605 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 572480008606 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 572480008607 FeS/SAM binding site; other site 572480008608 TRAM domain; Region: TRAM; pfam01938 572480008609 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 572480008610 NusA N-terminal domain; Region: NusA_N; pfam08529 572480008611 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 572480008612 RNA binding site [nucleotide binding]; other site 572480008613 homodimer interface [polypeptide binding]; other site 572480008614 NusA-like KH domain; Region: KH_5; pfam13184 572480008615 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 572480008616 G-X-X-G motif; other site 572480008617 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 572480008618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480008619 active site 572480008620 HIGH motif; other site 572480008621 nucleotide binding site [chemical binding]; other site 572480008622 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 572480008623 KMSKS motif; other site 572480008624 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572480008625 tRNA binding surface [nucleotide binding]; other site 572480008626 anticodon binding site; other site 572480008627 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 572480008628 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 572480008629 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 572480008630 dimer interface [polypeptide binding]; other site 572480008631 ssDNA binding site [nucleotide binding]; other site 572480008632 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572480008633 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 572480008634 DNA polymerase III subunit delta; Validated; Region: PRK08487 572480008635 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 572480008636 RNB domain; Region: RNB; pfam00773 572480008637 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 572480008638 ketol-acid reductoisomerase; Provisional; Region: PRK05479 572480008639 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 572480008640 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 572480008641 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 572480008642 NodB motif; other site 572480008643 putative active site [active] 572480008644 putative catalytic site [active] 572480008645 Zn binding site [ion binding]; other site 572480008646 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 572480008647 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480008648 dimer interface [polypeptide binding]; other site 572480008649 putative CheW interface [polypeptide binding]; other site 572480008650 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480008651 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 572480008652 substrate binding pocket [chemical binding]; other site 572480008653 membrane-bound complex binding site; other site 572480008654 hinge residues; other site 572480008655 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572480008656 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 572480008657 dimer interface [polypeptide binding]; other site 572480008658 conserved gate region; other site 572480008659 ABC-ATPase subunit interface; other site 572480008660 DNA protecting protein DprA; Region: dprA; TIGR00732 572480008661 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 572480008662 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 572480008663 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 572480008664 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572480008665 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572480008666 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572480008667 hypothetical protein; Provisional; Region: PRK05839 572480008668 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 572480008669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008670 homodimer interface [polypeptide binding]; other site 572480008671 catalytic residue [active] 572480008672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 572480008673 TrkA-C domain; Region: TrkA_C; pfam02080 572480008674 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 572480008675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480008676 dimerization interface [polypeptide binding]; other site 572480008677 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 572480008678 dimer interface [polypeptide binding]; other site 572480008679 phosphorylation site [posttranslational modification] 572480008680 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 572480008681 ATP binding site [chemical binding]; other site 572480008682 Mg2+ binding site [ion binding]; other site 572480008683 G-X-G motif; other site 572480008684 Outer membrane efflux protein; Region: OEP; pfam02321 572480008685 Outer membrane efflux protein; Region: OEP; pfam02321 572480008686 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 572480008687 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 572480008688 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 572480008689 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 572480008690 ArsC family; Region: ArsC; pfam03960 572480008691 catalytic residue [active] 572480008692 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 572480008693 Class I aldolases; Region: Aldolase_Class_I; cl17187 572480008694 transaldolase; Provisional; Region: PRK03903 572480008695 catalytic residue [active] 572480008696 phosphoserine phosphatase SerB; Region: serB; TIGR00338 572480008697 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 572480008698 motif II; other site 572480008699 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 572480008700 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 572480008701 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 572480008702 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 572480008703 putative dimer interface [polypeptide binding]; other site 572480008704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 572480008705 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 572480008706 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572480008707 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 572480008708 dimer interface [polypeptide binding]; other site 572480008709 conserved gate region; other site 572480008710 putative PBP binding loops; other site 572480008711 ABC-ATPase subunit interface; other site 572480008712 pantoate--beta-alanine ligase; Region: panC; TIGR00018 572480008713 Pantoate-beta-alanine ligase; Region: PanC; cd00560 572480008714 active site 572480008715 ATP-binding site [chemical binding]; other site 572480008716 pantoate-binding site; other site 572480008717 HXXH motif; other site 572480008718 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 572480008719 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572480008720 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 572480008721 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 572480008722 Ligand Binding Site [chemical binding]; other site 572480008723 flagellar protein FliS; Validated; Region: fliS; PRK05685 572480008724 flagellar capping protein; Reviewed; Region: fliD; PRK08032 572480008725 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 572480008726 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 572480008727 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 572480008728 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 572480008729 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 572480008730 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 572480008731 Flagellar L-ring protein; Region: FlgH; pfam02107 572480008732 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 572480008733 Uncharacterized conserved protein [Function unknown]; Region: COG3334 572480008734 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 572480008735 Flagellar P-ring protein; Region: FlgI; pfam02119 572480008736 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 572480008737 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 572480008738 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 572480008739 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 572480008740 active site 572480008741 substrate binding pocket [chemical binding]; other site 572480008742 dimer interface [polypeptide binding]; other site 572480008743 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 572480008744 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572480008745 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 572480008746 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 572480008747 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572480008748 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 572480008749 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 572480008750 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 572480008751 metal binding triad; other site 572480008752 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 572480008753 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 572480008754 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 572480008755 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 572480008756 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 572480008757 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 572480008758 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 572480008759 DsbD alpha interface [polypeptide binding]; other site 572480008760 catalytic residues [active] 572480008761 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 572480008762 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572480008763 catalytic residues [active] 572480008764 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 572480008765 active site residue [active] 572480008766 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 572480008767 murein transglycosylase A; Provisional; Region: mltA; PRK11162 572480008768 MltA specific insert domain; Region: MltA; smart00925 572480008769 3D domain; Region: 3D; pfam06725 572480008770 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 572480008771 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 572480008772 nucleotide binding site [chemical binding]; other site 572480008773 NEF interaction site [polypeptide binding]; other site 572480008774 SBD interface [polypeptide binding]; other site 572480008775 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 572480008776 GrpE; Region: GrpE; pfam01025 572480008777 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 572480008778 dimer interface [polypeptide binding]; other site 572480008779 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 572480008780 heat-inducible transcription repressor; Provisional; Region: PRK03911 572480008781 Protein of unknown function DUF86; Region: DUF86; cl01031 572480008782 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572480008783 active site 572480008784 NTP binding site [chemical binding]; other site 572480008785 metal binding triad [ion binding]; metal-binding site 572480008786 antibiotic binding site [chemical binding]; other site 572480008787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480008788 AAA domain; Region: AAA_21; pfam13304 572480008789 Q-loop/lid; other site 572480008790 ABC transporter signature motif; other site 572480008791 Walker B; other site 572480008792 D-loop; other site 572480008793 H-loop/switch region; other site 572480008794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480008795 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572480008796 Walker A/P-loop; other site 572480008797 Walker A/P-loop; other site 572480008798 ATP binding site [chemical binding]; other site 572480008799 ATP binding site [chemical binding]; other site 572480008800 Q-loop/lid; other site 572480008801 KilA-N domain; Region: KilA-N; pfam04383 572480008802 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 572480008803 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480008804 putative substrate translocation pore; other site 572480008805 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572480008806 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 572480008807 active site 572480008808 phosphorylation site [posttranslational modification] 572480008809 intermolecular recognition site; other site 572480008810 dimerization interface [polypeptide binding]; other site 572480008811 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; cl17355 572480008812 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 572480008813 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 572480008814 dimerization interface 3.5A [polypeptide binding]; other site 572480008815 active site 572480008816 Predicted permeases [General function prediction only]; Region: COG0795 572480008817 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 572480008818 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 572480008819 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 572480008820 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14833 572480008821 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 572480008822 catalytic residue [active] 572480008823 putative FPP diphosphate binding site; other site 572480008824 putative FPP binding hydrophobic cleft; other site 572480008825 dimer interface [polypeptide binding]; other site 572480008826 putative IPP diphosphate binding site; other site 572480008827 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 572480008828 Flavoprotein; Region: Flavoprotein; pfam02441 572480008829 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 572480008830 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 572480008831 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 572480008832 active site 572480008833 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 572480008834 active site 572480008835 substrate binding site [chemical binding]; other site 572480008836 CoA binding site [chemical binding]; other site 572480008837 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 572480008838 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008839 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 572480008840 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008841 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 572480008842 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008843 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 572480008844 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008845 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 572480008846 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008847 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008848 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 572480008849 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572480008850 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 572480008851 nucleotide binding region [chemical binding]; other site 572480008852 ATP-binding site [chemical binding]; other site 572480008853 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 572480008854 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 572480008855 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 572480008856 S-adenosylmethionine binding site [chemical binding]; other site 572480008857 flagellin B; Provisional; Region: PRK13588 572480008858 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572480008859 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 572480008860 flagellin; Provisional; Region: PRK12808 572480008861 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 572480008862 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 572480008863 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 572480008864 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 572480008865 dimer interface [polypeptide binding]; other site 572480008866 active site 572480008867 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 572480008868 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 572480008869 Substrate binding site; other site 572480008870 Mg++ binding site; other site 572480008871 metal-binding site 572480008872 Mg++ binding site; other site 572480008873 metal-binding site 572480008874 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 572480008875 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 572480008876 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 572480008877 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 572480008878 inhibitor-cofactor binding pocket; inhibition site 572480008879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008880 catalytic residue [active] 572480008881 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572480008882 extended (e) SDRs; Region: SDR_e; cd08946 572480008883 NAD(P) binding site [chemical binding]; other site 572480008884 active site 572480008885 substrate binding site [chemical binding]; other site 572480008886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572480008887 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 572480008888 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 572480008889 NADP binding site [chemical binding]; other site 572480008890 active site 572480008891 putative substrate binding site [chemical binding]; other site 572480008892 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 572480008893 TPP-binding site [chemical binding]; other site 572480008894 dimer interface [polypeptide binding]; other site 572480008895 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 572480008896 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 572480008897 PYR/PP interface [polypeptide binding]; other site 572480008898 dimer interface [polypeptide binding]; other site 572480008899 TPP binding site [chemical binding]; other site 572480008900 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572480008901 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 572480008902 active site 572480008903 ATP sulphurylase; Region: sopT; TIGR00339 572480008904 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480008905 active site 572480008906 nucleotide binding site [chemical binding]; other site 572480008907 HIGH motif; other site 572480008908 KMSKS motif; other site 572480008909 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 572480008910 active site 572480008911 domain interfaces; other site 572480008912 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 572480008913 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 572480008914 active site 572480008915 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 572480008916 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 572480008917 Radical SAM superfamily; Region: Radical_SAM; pfam04055 572480008918 FeS/SAM binding site; other site 572480008919 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 572480008920 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 572480008921 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 572480008922 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 572480008923 FeS/SAM binding site; other site 572480008924 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 572480008925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 572480008926 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 572480008927 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 572480008928 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 572480008929 putative active site [active] 572480008930 metal binding site [ion binding]; metal-binding site 572480008931 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572480008932 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 572480008933 PYR/PP interface [polypeptide binding]; other site 572480008934 dimer interface [polypeptide binding]; other site 572480008935 TPP binding site [chemical binding]; other site 572480008936 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 572480008937 TPP-binding site; other site 572480008938 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572480008939 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 572480008940 active site 572480008941 nucleotide binding site [chemical binding]; other site 572480008942 HIGH motif; other site 572480008943 KMSKS motif; other site 572480008944 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 572480008945 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 572480008946 tetramer interface [polypeptide binding]; other site 572480008947 active site 572480008948 Mg2+/Mn2+ binding site [ion binding]; other site 572480008949 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 572480008950 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 572480008951 FeS/SAM binding site; other site 572480008952 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 572480008953 LicD family; Region: LicD; pfam04991 572480008954 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 572480008955 Methyltransferase domain; Region: Methyltransf_25; pfam13649 572480008956 S-adenosylmethionine binding site [chemical binding]; other site 572480008957 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 572480008958 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480008959 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 572480008960 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 572480008961 pseudaminic acid synthase; Region: PseI; TIGR03586 572480008962 NeuB family; Region: NeuB; pfam03102 572480008963 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 572480008964 NeuB binding interface [polypeptide binding]; other site 572480008965 putative substrate binding site [chemical binding]; other site 572480008966 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 572480008967 ligand binding site; other site 572480008968 tetramer interface; other site 572480008969 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572480008970 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 572480008971 inhibitor-cofactor binding pocket; inhibition site 572480008972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480008973 catalytic residue [active] 572480008974 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 572480008975 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 572480008976 NAD(P) binding site [chemical binding]; other site 572480008977 homodimer interface [polypeptide binding]; other site 572480008978 substrate binding site [chemical binding]; other site 572480008979 active site 572480008980 recombinase A; Provisional; Region: recA; PRK09354 572480008981 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 572480008982 hexamer interface [polypeptide binding]; other site 572480008983 Walker A motif; other site 572480008984 ATP binding site [chemical binding]; other site 572480008985 Walker B motif; other site 572480008986 enolase; Provisional; Region: eno; PRK00077 572480008987 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 572480008988 dimer interface [polypeptide binding]; other site 572480008989 metal binding site [ion binding]; metal-binding site 572480008990 substrate binding pocket [chemical binding]; other site 572480008991 Septum formation initiator; Region: DivIC; cl17659 572480008992 AMIN domain; Region: AMIN; pfam11741 572480008993 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572480008994 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572480008995 biotin synthase; Provisional; Region: PRK08508 572480008996 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 572480008997 FeS/SAM binding site; other site 572480008998 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 572480008999 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 572480009000 active site 572480009001 metal binding site [ion binding]; metal-binding site 572480009002 homotetramer interface [polypeptide binding]; other site 572480009003 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 572480009004 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 572480009005 active site 572480009006 interdomain interaction site; other site 572480009007 putative metal-binding site [ion binding]; other site 572480009008 nucleotide binding site [chemical binding]; other site 572480009009 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 572480009010 domain I; other site 572480009011 DNA binding groove [nucleotide binding] 572480009012 phosphate binding site [ion binding]; other site 572480009013 domain II; other site 572480009014 domain III; other site 572480009015 nucleotide binding site [chemical binding]; other site 572480009016 catalytic site [active] 572480009017 domain IV; other site 572480009018 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 572480009019 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 572480009020 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 572480009021 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 572480009022 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 572480009023 SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate...; Region: SPARC_EC; cd00252 572480009024 EF-hand domain pair; Region: EF_hand_5; pfam13499 572480009025 EF-hand Ca2+ binding loops [ion binding]; other site 572480009026 FS-domain interface [polypeptide binding]; other site 572480009027 putative K+ binding site [ion binding]; other site 572480009028 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 572480009029 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480009030 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 572480009031 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480009032 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 572480009033 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 572480009034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 572480009035 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 572480009036 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 572480009037 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 572480009038 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 572480009039 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 572480009040 4Fe-4S binding domain; Region: Fer4; pfam00037 572480009041 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 572480009042 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 572480009043 NADH dehydrogenase subunit G; Validated; Region: PRK08493 572480009044 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 572480009045 catalytic loop [active] 572480009046 iron binding site [ion binding]; other site 572480009047 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572480009048 4Fe-4S binding domain; Region: Fer4; pfam00037 572480009049 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 572480009050 NADH dehydrogenase subunit G; Validated; Region: PRK08493 572480009051 NADH dehydrogenase subunit G; Validated; Region: PRK08493 572480009052 NADH dehydrogenase subunit D; Validated; Region: PRK06075 572480009053 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 572480009054 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 572480009055 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 572480009056 NADH dehydrogenase subunit B; Validated; Region: PRK06411 572480009057 NADH dehydrogenase subunit A; Validated; Region: PRK08489 572480009058 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 572480009059 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 572480009060 Walker A motif; other site 572480009061 ATP binding site [chemical binding]; other site 572480009062 Walker B motif; other site 572480009063 arginine finger; other site 572480009064 DpnII restriction endonuclease; Region: DpnII; pfam04556 572480009065 Protein of unknown function DUF262; Region: DUF262; pfam03235 572480009066 Uncharacterized conserved protein [Function unknown]; Region: COG1479 572480009067 Protein of unknown function DUF262; Region: DUF262; pfam03235 572480009068 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 572480009069 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 572480009070 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 572480009071 DNA methylase; Region: N6_N4_Mtase; cl17433 572480009072 DNA methylase; Region: N6_N4_Mtase; pfam01555 572480009073 endonuclease IV; Provisional; Region: PRK01060 572480009074 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 572480009075 AP (apurinic/apyrimidinic) site pocket; other site 572480009076 DNA interaction; other site 572480009077 Metal-binding active site; metal-binding site 572480009078 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 572480009079 L-lactate permease; Region: Lactate_perm; cl00701 572480009080 Cache domain; Region: Cache_1; pfam02743 572480009081 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480009082 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480009083 dimer interface [polypeptide binding]; other site 572480009084 putative CheW interface [polypeptide binding]; other site 572480009085 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 572480009086 fumarate hydratase; Reviewed; Region: fumC; PRK00485 572480009087 Class II fumarases; Region: Fumarase_classII; cd01362 572480009088 active site 572480009089 tetramer interface [polypeptide binding]; other site 572480009090 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 572480009091 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 572480009092 putative active site [active] 572480009093 putative catalytic site [active] 572480009094 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 572480009095 putative active site [active] 572480009096 putative catalytic site [active] 572480009097 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 572480009098 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 572480009099 acyl-activating enzyme (AAE) consensus motif; other site 572480009100 AMP binding site [chemical binding]; other site 572480009101 active site 572480009102 CoA binding site [chemical binding]; other site 572480009103 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 572480009104 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 572480009105 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572480009106 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 572480009107 Bacterial transcriptional regulator; Region: IclR; pfam01614 572480009108 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009109 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 572480009110 dimer interface [polypeptide binding]; other site 572480009111 phosphorylation site [posttranslational modification] 572480009112 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 572480009113 ATP binding site [chemical binding]; other site 572480009114 Mg2+ binding site [ion binding]; other site 572480009115 G-X-G motif; other site 572480009116 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 572480009117 Ligand Binding Site [chemical binding]; other site 572480009118 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 572480009119 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 572480009120 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 572480009121 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 572480009122 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 572480009123 active site 572480009124 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 572480009125 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 572480009126 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 572480009127 Walker A motif; other site 572480009128 ATP binding site [chemical binding]; other site 572480009129 Walker B motif; other site 572480009130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572480009131 rod shape-determining protein MreB; Provisional; Region: PRK13927 572480009132 MreB and similar proteins; Region: MreB_like; cd10225 572480009133 nucleotide binding site [chemical binding]; other site 572480009134 Mg binding site [ion binding]; other site 572480009135 putative protofilament interaction site [polypeptide binding]; other site 572480009136 RodZ interaction site [polypeptide binding]; other site 572480009137 rod shape-determining protein MreC; Provisional; Region: PRK13922 572480009138 rod shape-determining protein MreC; Region: MreC; pfam04085 572480009139 Response regulator receiver domain; Region: Response_reg; pfam00072 572480009140 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 572480009141 active site 572480009142 phosphorylation site [posttranslational modification] 572480009143 intermolecular recognition site; other site 572480009144 dimerization interface [polypeptide binding]; other site 572480009145 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480009146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009147 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 572480009148 dimer interface [polypeptide binding]; other site 572480009149 phosphorylation site [posttranslational modification] 572480009150 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 572480009151 ATP binding site [chemical binding]; other site 572480009152 Mg2+ binding site [ion binding]; other site 572480009153 G-X-G motif; other site 572480009154 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 572480009155 Lumazine binding domain; Region: Lum_binding; pfam00677 572480009156 Lumazine binding domain; Region: Lum_binding; pfam00677 572480009157 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 572480009158 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 572480009159 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 572480009160 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 572480009161 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 572480009162 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480009163 dimer interface [polypeptide binding]; other site 572480009164 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480009165 putative CheW interface [polypeptide binding]; other site 572480009166 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 572480009167 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572480009168 MarR family; Region: MarR_2; pfam12802 572480009169 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572480009170 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572480009171 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480009172 HlyD family secretion protein; Region: HlyD_3; pfam13437 572480009173 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 572480009174 Protein export membrane protein; Region: SecD_SecF; cl14618 572480009175 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 572480009176 4Fe-4S binding domain; Region: Fer4_5; pfam12801 572480009177 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 572480009178 CTP synthetase; Validated; Region: pyrG; PRK05380 572480009179 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 572480009180 Catalytic site [active] 572480009181 active site 572480009182 UTP binding site [chemical binding]; other site 572480009183 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 572480009184 active site 572480009185 putative oxyanion hole; other site 572480009186 catalytic triad [active] 572480009187 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 572480009188 DHH family; Region: DHH; pfam01368 572480009189 DHHA1 domain; Region: DHHA1; pfam02272 572480009190 Predicted integral membrane protein [Function unknown]; Region: COG5616 572480009191 DJ-1 family protein; Region: not_thiJ; TIGR01383 572480009192 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 572480009193 conserved cys residue [active] 572480009194 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 572480009195 RNA binding surface [nucleotide binding]; other site 572480009196 CHASE2 domain; Region: CHASE2; pfam05226 572480009197 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 572480009198 cyclase homology domain; Region: CHD; cd07302 572480009199 nucleotidyl binding site; other site 572480009200 metal binding site [ion binding]; metal-binding site 572480009201 dimer interface [polypeptide binding]; other site 572480009202 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 572480009203 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572480009204 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480009205 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 572480009206 putative active site [active] 572480009207 putative metal binding site [ion binding]; other site 572480009208 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572480009209 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 572480009210 active site 572480009211 nucleophile elbow; other site 572480009212 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 572480009213 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 572480009214 active site 572480009215 PHP Thumb interface [polypeptide binding]; other site 572480009216 metal binding site [ion binding]; metal-binding site 572480009217 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 572480009218 generic binding surface II; other site 572480009219 generic binding surface I; other site 572480009220 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 572480009221 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 572480009222 active site 572480009223 Zn binding site [ion binding]; other site 572480009224 Protein of unknown function (DUF493); Region: DUF493; pfam04359 572480009225 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 572480009226 trimer interface [polypeptide binding]; other site 572480009227 dimer interface [polypeptide binding]; other site 572480009228 putative active site [active] 572480009229 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 572480009230 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 572480009231 Low-spin heme binding site [chemical binding]; other site 572480009232 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 572480009233 D-pathway; other site 572480009234 Putative water exit pathway; other site 572480009235 Binuclear center (active site) [active] 572480009236 K-pathway; other site 572480009237 Putative proton exit pathway; other site 572480009238 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 572480009239 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 572480009240 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 572480009241 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 572480009242 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 572480009243 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 572480009244 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572480009245 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 572480009246 S-adenosylmethionine binding site [chemical binding]; other site 572480009247 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 572480009248 ribosome recycling factor; Reviewed; Region: frr; PRK00083 572480009249 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 572480009250 hinge region; other site 572480009251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572480009252 active site 572480009253 RDD family; Region: RDD; pfam06271 572480009254 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 572480009255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480009256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480009257 metal binding site [ion binding]; metal-binding site 572480009258 active site 572480009259 I-site; other site 572480009260 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 572480009261 Protein of unknown function (DUF328); Region: DUF328; pfam03883 572480009262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 572480009263 SEC-C motif; Region: SEC-C; pfam02810 572480009264 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 572480009265 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572480009266 putative substrate translocation pore; other site 572480009267 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 572480009268 Uncharacterized ALDH ( RL0313) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_RL0313; cd07148 572480009269 NAD(P) binding site [chemical binding]; other site 572480009270 catalytic residues [active] 572480009271 acetolactate synthase; Reviewed; Region: PRK08322 572480009272 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572480009273 PYR/PP interface [polypeptide binding]; other site 572480009274 dimer interface [polypeptide binding]; other site 572480009275 TPP binding site [chemical binding]; other site 572480009276 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 572480009277 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 572480009278 TPP-binding site [chemical binding]; other site 572480009279 dimer interface [polypeptide binding]; other site 572480009280 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 572480009281 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 572480009282 motif II; other site 572480009283 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 572480009284 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480009285 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 572480009286 substrate binding pocket [chemical binding]; other site 572480009287 membrane-bound complex binding site; other site 572480009288 hinge residues; other site 572480009289 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572480009290 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 572480009291 substrate binding pocket [chemical binding]; other site 572480009292 membrane-bound complex binding site; other site 572480009293 hinge residues; other site 572480009294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480009295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480009296 metal binding site [ion binding]; metal-binding site 572480009297 active site 572480009298 I-site; other site 572480009299 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 572480009300 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572480009301 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572480009302 putative acyl-acceptor binding pocket; other site 572480009303 Protein of unknown function DUF86; Region: DUF86; cl01031 572480009304 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572480009305 active site 572480009306 NTP binding site [chemical binding]; other site 572480009307 metal binding triad [ion binding]; metal-binding site 572480009308 antibiotic binding site [chemical binding]; other site 572480009309 flavoprotein, HI0933 family; Region: TIGR00275 572480009310 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 572480009311 Walker A motif; other site 572480009312 ATP binding site [chemical binding]; other site 572480009313 Walker B motif; other site 572480009314 arginine finger; other site 572480009315 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 572480009316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 572480009317 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 572480009318 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 572480009319 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572480009320 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 572480009321 Protein export membrane protein; Region: SecD_SecF; cl14618 572480009322 Protein export membrane protein; Region: SecD_SecF; cl14618 572480009323 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572480009324 Cupin domain; Region: Cupin_2; cl17218 572480009325 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 572480009326 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 572480009327 homodimer interface [polypeptide binding]; other site 572480009328 substrate-cofactor binding pocket; other site 572480009329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480009330 catalytic residue [active] 572480009331 Predicted transcriptional regulator [Transcription]; Region: COG1959 572480009332 Transcriptional regulator; Region: Rrf2; pfam02082 572480009333 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 572480009334 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 572480009335 dimer interface [polypeptide binding]; other site 572480009336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572480009337 catalytic residue [active] 572480009338 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 572480009339 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 572480009340 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 572480009341 Active Sites [active] 572480009342 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 572480009343 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 572480009344 Active Sites [active] 572480009345 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 572480009346 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 572480009347 CysD dimerization site [polypeptide binding]; other site 572480009348 G1 box; other site 572480009349 putative GEF interaction site [polypeptide binding]; other site 572480009350 GTP/Mg2+ binding site [chemical binding]; other site 572480009351 Switch I region; other site 572480009352 G2 box; other site 572480009353 G3 box; other site 572480009354 Switch II region; other site 572480009355 G4 box; other site 572480009356 G5 box; other site 572480009357 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 572480009358 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 572480009359 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 572480009360 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572480009361 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572480009362 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572480009363 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 572480009364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572480009365 catalytic residue [active] 572480009366 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 572480009367 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 572480009368 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 572480009369 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480009370 putative active site [active] 572480009371 putative metal binding site [ion binding]; other site 572480009372 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 572480009373 PAS fold; Region: PAS_3; pfam08447 572480009374 putative active site [active] 572480009375 heme pocket [chemical binding]; other site 572480009376 Nitrate and nitrite sensing; Region: NIT; pfam08376 572480009377 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 572480009378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 572480009379 dimer interface [polypeptide binding]; other site 572480009380 putative CheW interface [polypeptide binding]; other site 572480009381 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 572480009382 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 572480009383 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 572480009384 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 572480009385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 572480009386 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 572480009387 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 572480009388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 572480009389 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 572480009390 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 572480009391 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 572480009392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 572480009393 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 572480009394 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 572480009395 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 572480009396 putative dimer interface [polypeptide binding]; other site 572480009397 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 572480009398 dimerization interface [polypeptide binding]; other site 572480009399 PAS domain S-box; Region: sensory_box; TIGR00229 572480009400 PAS domain; Region: PAS_8; pfam13188 572480009401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009402 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 572480009403 ATP binding site [chemical binding]; other site 572480009404 Mg2+ binding site [ion binding]; other site 572480009405 G-X-G motif; other site 572480009406 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 572480009407 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 572480009408 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 572480009409 G1 box; other site 572480009410 putative GEF interaction site [polypeptide binding]; other site 572480009411 GTP/Mg2+ binding site [chemical binding]; other site 572480009412 Switch I region; other site 572480009413 G2 box; other site 572480009414 G3 box; other site 572480009415 Switch II region; other site 572480009416 G4 box; other site 572480009417 G5 box; other site 572480009418 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 572480009419 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 572480009420 hypothetical protein; Provisional; Region: PRK11018 572480009421 CPxP motif; other site 572480009422 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 572480009423 glutaminase; Provisional; Region: PRK00971 572480009424 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480009425 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480009426 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009427 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 572480009428 ATP binding site [chemical binding]; other site 572480009429 Mg2+ binding site [ion binding]; other site 572480009430 G-X-G motif; other site 572480009431 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480009432 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 572480009433 active site 572480009434 phosphorylation site [posttranslational modification] 572480009435 intermolecular recognition site; other site 572480009436 dimerization interface [polypeptide binding]; other site 572480009437 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480009438 DNA binding site [nucleotide binding] 572480009439 haemagglutination activity domain; Region: Haemagg_act; smart00912 572480009440 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 572480009441 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 572480009442 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 572480009443 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 572480009444 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 572480009445 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009446 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 572480009447 ATP binding site [chemical binding]; other site 572480009448 G-X-G motif; other site 572480009449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480009450 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 572480009451 active site 572480009452 phosphorylation site [posttranslational modification] 572480009453 intermolecular recognition site; other site 572480009454 dimerization interface [polypeptide binding]; other site 572480009455 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 572480009456 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 572480009457 binding surface 572480009458 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572480009459 TPR motif; other site 572480009460 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572480009461 FecR protein; Region: FecR; pfam04773 572480009462 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572480009463 FtsX-like permease family; Region: FtsX; pfam02687 572480009464 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572480009465 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572480009466 Walker A/P-loop; other site 572480009467 ATP binding site [chemical binding]; other site 572480009468 Q-loop/lid; other site 572480009469 ABC transporter signature motif; other site 572480009470 Walker B; other site 572480009471 D-loop; other site 572480009472 H-loop/switch region; other site 572480009473 YceI-like domain; Region: YceI; pfam04264 572480009474 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 572480009475 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572480009476 putative active site [active] 572480009477 putative metal binding site [ion binding]; other site 572480009478 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 572480009479 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 572480009480 active site 572480009481 phosphorylation site [posttranslational modification] 572480009482 intermolecular recognition site; other site 572480009483 dimerization interface [polypeptide binding]; other site 572480009484 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 572480009485 DNA binding site [nucleotide binding] 572480009486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009487 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 572480009488 dimer interface [polypeptide binding]; other site 572480009489 phosphorylation site [posttranslational modification] 572480009490 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 572480009491 ATP binding site [chemical binding]; other site 572480009492 G-X-G motif; other site 572480009493 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 572480009494 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 572480009495 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572480009496 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 572480009497 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 572480009498 Ligand Binding Site [chemical binding]; other site 572480009499 putative metal dependent hydrolase; Provisional; Region: PRK11598 572480009500 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 572480009501 Sulfatase; Region: Sulfatase; pfam00884 572480009502 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 572480009503 active site 572480009504 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 572480009505 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 572480009506 Dihaem cytochrome c; Region: DHC; pfam09626 572480009507 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 572480009508 Dihaem cytochrome c; Region: DHC; pfam09626 572480009509 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 572480009510 dimer interface [polypeptide binding]; other site 572480009511 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572480009512 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 572480009513 active site 572480009514 phosphorylation site [posttranslational modification] 572480009515 intermolecular recognition site; other site 572480009516 dimerization interface [polypeptide binding]; other site 572480009517 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 572480009518 DNA binding site [nucleotide binding] 572480009519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572480009520 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 572480009521 dimerization interface [polypeptide binding]; other site 572480009522 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 572480009523 ATP binding site [chemical binding]; other site 572480009524 Mg2+ binding site [ion binding]; other site 572480009525 G-X-G motif; other site 572480009526 Predicted membrane protein [Function unknown]; Region: COG2860 572480009527 UPF0126 domain; Region: UPF0126; pfam03458 572480009528 UPF0126 domain; Region: UPF0126; pfam03458 572480009529 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572480009530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572480009531 metal binding site [ion binding]; metal-binding site 572480009532 active site 572480009533 I-site; other site 572480009534 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 572480009535 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 572480009536 Response regulator receiver domain; Region: Response_reg; pfam00072 572480009537 active site 572480009538 phosphorylation site [posttranslational modification] 572480009539 intermolecular recognition site; other site 572480009540 dimerization interface [polypeptide binding]; other site 572480009541 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 572480009542 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 572480009543 active site 572480009544 substrate binding site [chemical binding]; other site 572480009545 cosubstrate binding site; other site 572480009546 catalytic site [active] 572480009547 EamA-like transporter family; Region: EamA; pfam00892 572480009548 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572480009549 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 572480009550 active site 572480009551 putative DNA-binding cleft [nucleotide binding]; other site 572480009552 dimer interface [polypeptide binding]; other site