-- dump date 20120504_152439 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272630000001 Replication initiator protein A; Region: RPA; cl02339 272630000002 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272630000003 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 272630000004 P-loop; other site 272630000005 Magnesium ion binding site [ion binding]; other site 272630000006 ParB-like nuclease domain; Region: ParBc; cl02129 272630000007 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 272630000008 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 272630000009 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 272630000010 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630000011 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272630000012 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630000013 catalytic residues [active] 272630000014 catalytic nucleophile [active] 272630000015 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630000016 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630000017 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630000018 Synaptic Site I dimer interface [polypeptide binding]; other site 272630000019 DNA binding site [nucleotide binding] 272630000020 Helix-turn-helix domains; Region: HTH; cl00088 272630000021 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 272630000022 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 272630000023 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630000024 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630000025 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 272630000026 putative homodimer interface [polypeptide binding]; other site 272630000027 putative homotetramer interface [polypeptide binding]; other site 272630000028 putative metal binding site [ion binding]; other site 272630000029 putative homodimer-homodimer interface [polypeptide binding]; other site 272630000030 putative allosteric switch controlling residues; other site 272630000031 H+ Antiporter protein; Region: 2A0121; TIGR00900 272630000032 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 272630000033 putative substrate translocation pore; other site 272630000034 High-affinity nickel-transport protein; Region: NicO; cl00964 272630000035 HupE / UreJ protein; Region: HupE_UreJ; cl01011 272630000036 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 272630000037 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272630000038 putative metal binding site [ion binding]; other site 272630000039 putative homodimer interface [polypeptide binding]; other site 272630000040 putative homotetramer interface [polypeptide binding]; other site 272630000041 putative homodimer-homodimer interface [polypeptide binding]; other site 272630000042 putative allosteric switch controlling residues; other site 272630000043 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 272630000044 MobA/MobL family; Region: MobA_MobL; pfam03389 272630000045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000046 Family description; Region: UvrD_C_2; cl15862 272630000047 RNA pol II promoter Fmp27 protein domain; Region: Fmp27_WPPW; pfam10359 272630000048 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630000049 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272630000050 DnaA N-terminal domain; Region: DnaA_N; pfam11638 272630000051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000052 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 272630000053 DnaA box-binding interface [nucleotide binding]; other site 272630000054 DNA polymerase III subunit beta; Validated; Region: PRK05643 272630000055 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 272630000056 putative DNA binding surface [nucleotide binding]; other site 272630000057 dimer interface [polypeptide binding]; other site 272630000058 beta-clamp/clamp loader binding surface; other site 272630000059 beta-clamp/translesion DNA polymerase binding surface; other site 272630000060 recombination protein F; Reviewed; Region: recF; PRK00064 272630000061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000062 Walker A/P-loop; other site 272630000063 ATP binding site [chemical binding]; other site 272630000064 Q-loop/lid; other site 272630000065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000066 ABC transporter signature motif; other site 272630000067 Walker B; other site 272630000068 D-loop; other site 272630000069 H-loop/switch region; other site 272630000070 LysE type translocator; Region: LysE; cl00565 272630000071 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 272630000072 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 272630000073 ATP binding site [chemical binding]; other site 272630000074 putative Mg++ binding site [ion binding]; other site 272630000075 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 272630000076 nucleotide binding region [chemical binding]; other site 272630000077 ATP-binding site [chemical binding]; other site 272630000078 RQC domain; Region: RQC; cl09632 272630000079 HRDC domain; Region: HRDC; cl02578 272630000080 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272630000081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000082 Family description; Region: UvrD_C_2; cl15862 272630000083 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 272630000084 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 272630000085 dimerization interface [polypeptide binding]; other site 272630000086 ATP binding site [chemical binding]; other site 272630000087 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 272630000088 dimerization interface [polypeptide binding]; other site 272630000089 ATP binding site [chemical binding]; other site 272630000090 BolA-like protein; Region: BolA; cl00386 272630000091 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 272630000092 putative GSH binding site [chemical binding]; other site 272630000093 catalytic residues [active] 272630000094 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272630000095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000096 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 272630000097 PAS fold; Region: PAS_3; pfam08447 272630000098 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630000099 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 272630000100 dimer interface [polypeptide binding]; other site 272630000101 phosphorylation site [posttranslational modification] 272630000102 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 272630000103 ATP binding site [chemical binding]; other site 272630000104 Mg2+ binding site [ion binding]; other site 272630000105 G-X-G motif; other site 272630000106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630000107 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 272630000108 active site 272630000109 phosphorylation site [posttranslational modification] 272630000110 intermolecular recognition site; other site 272630000111 dimerization interface [polypeptide binding]; other site 272630000112 circadian clock protein KaiC; Reviewed; Region: PRK09302 272630000113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000114 Walker A motif; other site 272630000115 ATP binding site [chemical binding]; other site 272630000116 Walker B motif; other site 272630000117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000118 ATP binding site [chemical binding]; other site 272630000119 Walker A motif; other site 272630000120 Walker B motif; other site 272630000121 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 272630000122 short chain dehydrogenase; Provisional; Region: PRK06181 272630000123 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 272630000124 putative NAD(P) binding site [chemical binding]; other site 272630000125 active site 272630000126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630000127 DNA-binding site [nucleotide binding]; DNA binding site 272630000128 FCD domain; Region: FCD; cl11656 272630000129 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 272630000130 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 272630000131 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630000132 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 272630000133 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630000134 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630000135 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 272630000136 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 272630000137 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272630000138 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272630000139 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 272630000140 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272630000141 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 272630000142 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272630000143 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 272630000144 general secretion pathway protein J; Validated; Region: PRK08808 272630000145 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 272630000146 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272630000147 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 272630000148 Cu(I) binding site [ion binding]; other site 272630000149 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 272630000150 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272630000151 putative sugar binding sites [chemical binding]; other site 272630000152 Q-X-W motif; other site 272630000153 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 272630000154 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 272630000155 putative sugar binding sites [chemical binding]; other site 272630000156 Q-X-W motif; other site 272630000157 Kelch motif; Region: Kelch_1; cl02701 272630000158 Kelch motif; Region: Kelch_1; cl02701 272630000159 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 272630000160 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 272630000161 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 272630000162 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 272630000163 general secretion pathway protein F; Region: GspF; TIGR02120 272630000164 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630000165 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630000166 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272630000167 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 272630000168 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 272630000169 Walker A motif; other site 272630000170 ATP binding site [chemical binding]; other site 272630000171 Walker B motif; other site 272630000172 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 272630000173 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 272630000174 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 272630000175 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 272630000176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630000177 catalytic residue [active] 272630000178 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 monomeric; Region: PRAI; cd00405 272630000179 active site 272630000180 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 272630000181 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 272630000182 IHF dimer interface [polypeptide binding]; other site 272630000183 IHF - DNA interface [nucleotide binding]; other site 272630000184 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272630000185 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 272630000186 tandem repeat interface [polypeptide binding]; other site 272630000187 oligomer interface [polypeptide binding]; other site 272630000188 active site residues [active] 272630000189 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 272630000190 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 272630000191 RNA binding site [nucleotide binding]; other site 272630000192 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 272630000193 RNA binding site [nucleotide binding]; other site 272630000194 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 272630000195 RNA binding site [nucleotide binding]; other site 272630000196 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 272630000197 RNA binding site [nucleotide binding]; other site 272630000198 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 272630000199 RNA binding site [nucleotide binding]; other site 272630000200 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 272630000201 RNA binding site [nucleotide binding]; other site 272630000202 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272630000203 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272630000204 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272630000205 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 272630000206 active site 272630000207 Int/Topo IB signature motif; other site 272630000208 DNA binding site [nucleotide binding] 272630000209 Cell division inhibitor SulA; Region: SulA; cl01880 272630000210 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; cl00075 272630000211 Z1 domain; Region: Z1; pfam10593 272630000212 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 272630000213 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 272630000214 additional DNA contacts [nucleotide binding]; other site 272630000215 mismatch recognition site; other site 272630000216 active site 272630000217 zinc binding site [ion binding]; other site 272630000218 DNA intercalation site [nucleotide binding]; other site 272630000219 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 272630000220 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 272630000221 non-specific DNA binding site [nucleotide binding]; other site 272630000222 salt bridge; other site 272630000223 sequence-specific DNA binding site [nucleotide binding]; other site 272630000224 Short C-terminal domain; Region: SHOCT; cl01373 272630000225 Domain of unknown function (DUF927); Region: DUF927; cl12098 272630000226 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; cl09108 272630000227 Pirin-related protein [General function prediction only]; Region: COG1741 272630000228 Cupin domain; Region: Cupin_2; cl09118 272630000229 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 272630000230 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272630000231 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 272630000232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000233 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272630000234 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630000235 minor groove reading motif; other site 272630000236 helix-hairpin-helix signature motif; other site 272630000237 substrate binding pocket [chemical binding]; other site 272630000238 active site 272630000239 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272630000240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630000241 dimer interface [polypeptide binding]; other site 272630000242 putative CheW interface [polypeptide binding]; other site 272630000243 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272630000244 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630000245 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000246 Walker A/P-loop; other site 272630000247 ATP binding site [chemical binding]; other site 272630000248 Q-loop/lid; other site 272630000249 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630000250 ABC transporter signature motif; other site 272630000251 Walker B; other site 272630000252 D-loop; other site 272630000253 ABC transporter; Region: ABC_tran_2; pfam12848 272630000254 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630000255 Protein of unknown function (DUF419); Region: DUF419; cl15265 272630000256 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 272630000257 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 272630000258 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 272630000259 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 272630000260 putative ADP-binding pocket [chemical binding]; other site 272630000261 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 272630000262 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 272630000263 putative ADP-binding pocket [chemical binding]; other site 272630000264 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 272630000265 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 272630000266 active site 272630000267 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 272630000268 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 272630000269 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630000270 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 272630000271 active site 272630000272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630000273 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 272630000274 putative ADP-binding pocket [chemical binding]; other site 272630000275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000276 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272630000277 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 272630000278 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 272630000279 active site 272630000280 phosphorylation site [posttranslational modification] 272630000281 intermolecular recognition site; other site 272630000282 dimerization interface [polypeptide binding]; other site 272630000283 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630000284 Zn2+ binding site [ion binding]; other site 272630000285 Mg2+ binding site [ion binding]; other site 272630000286 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272630000287 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272630000288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000289 ABC transporter signature motif; other site 272630000290 Walker B; other site 272630000291 D-loop; other site 272630000292 H-loop/switch region; other site 272630000293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000294 Walker A/P-loop; other site 272630000295 ATP binding site [chemical binding]; other site 272630000296 Q-loop/lid; other site 272630000297 ABC transporter signature motif; other site 272630000298 Walker B; other site 272630000299 D-loop; other site 272630000300 H-loop/switch region; other site 272630000301 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272630000302 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 272630000303 conserved cys residue [active] 272630000304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630000305 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272630000306 classical (c) SDRs; Region: SDR_c; cd05233 272630000307 NAD(P) binding site [chemical binding]; other site 272630000308 active site 272630000309 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 272630000310 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; cl00159 272630000311 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630000312 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630000313 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630000314 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630000315 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630000316 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630000317 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 272630000318 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 272630000319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000320 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 272630000321 L-serine binding site [chemical binding]; other site 272630000322 ACT domain interface; other site 272630000323 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272630000324 FAD binding domain; Region: FAD_binding_4; pfam01565 272630000325 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 272630000326 heme-binding residues [chemical binding]; other site 272630000327 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 272630000328 molybdopterin cofactor binding site; other site 272630000329 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 272630000330 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 272630000331 4Fe-4S binding domain; Region: Fer4; cl02805 272630000332 Polysulphide reductase, NrfD; Region: NrfD; cl01295 272630000333 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 272630000334 Cytochrome c; Region: Cytochrom_C; cl11414 272630000335 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630000336 Cytochrome c; Region: Cytochrom_C; cl11414 272630000337 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 272630000338 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 272630000339 D-pathway; other site 272630000340 Low-spin heme binding site [chemical binding]; other site 272630000341 Putative water exit pathway; other site 272630000342 Binuclear center (active site) [active] 272630000343 K-pathway; other site 272630000344 Putative proton exit pathway; other site 272630000345 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 272630000346 Subunit I/III interface [polypeptide binding]; other site 272630000347 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 272630000348 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272630000349 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630000350 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 272630000351 DNA binding residues [nucleotide binding] 272630000352 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 272630000353 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 272630000354 putative heme binding pocket [chemical binding]; other site 272630000355 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 272630000356 potassium-transporting ATPase subunit F; Provisional; Region: PRK14759 272630000357 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 272630000358 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 272630000359 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630000360 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630000361 K+-transporting ATPase, c chain; Region: KdpC; cl00944 272630000362 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 272630000363 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 272630000364 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 272630000365 Ligand Binding Site [chemical binding]; other site 272630000366 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 272630000367 dimer interface [polypeptide binding]; other site 272630000368 phosphorylation site [posttranslational modification] 272630000369 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 272630000370 ATP binding site [chemical binding]; other site 272630000371 Mg2+ binding site [ion binding]; other site 272630000372 G-X-G motif; other site 272630000373 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 272630000374 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 272630000375 active site 272630000376 phosphorylation site [posttranslational modification] 272630000377 intermolecular recognition site; other site 272630000378 dimerization interface [polypeptide binding]; other site 272630000379 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 272630000380 DNA binding site [nucleotide binding] 272630000381 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272630000382 NMT1-like family; Region: NMT1_2; cl15260 272630000383 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272630000384 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 272630000385 S-adenosylmethionine binding site [chemical binding]; other site 272630000386 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 272630000387 catalytic core [active] 272630000388 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 272630000389 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 272630000390 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630000391 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 272630000392 NAD binding site [chemical binding]; other site 272630000393 putative substrate binding site 2 [chemical binding]; other site 272630000394 putative substrate binding site 1 [chemical binding]; other site 272630000395 active site 272630000396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 272630000397 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 272630000398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 272630000399 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 272630000400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 272630000401 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 272630000402 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 272630000403 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 272630000404 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 272630000405 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 272630000406 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272630000407 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 272630000408 FeS/SAM binding site; other site 272630000409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000410 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272630000411 NAD(P) binding site [chemical binding]; other site 272630000412 active site 272630000413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000414 NAD(P) binding site [chemical binding]; other site 272630000415 active site 272630000416 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 272630000417 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 272630000418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630000419 PilZ domain; Region: PilZ; cl01260 272630000420 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630000421 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630000422 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 272630000423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630000424 potential protein location (conserved hypothetical protein, flagellin protein (fragment)) that overlaps protein (conserved hypothetical protein, flagellin protein (fragment)) 272630000425 potential protein location (conserved hypothetical protein, flagellin protein (fragment)) that overlaps protein (conserved hypothetical protein, flagellin protein (fragment)) 272630000426 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 272630000427 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 272630000428 active site 272630000429 DNA binding site [nucleotide binding] 272630000430 Int/Topo IB signature motif; other site 272630000431 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630000432 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272630000433 catalytic residues [active] 272630000434 catalytic nucleophile [active] 272630000435 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630000436 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630000437 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630000438 Synaptic Site I dimer interface [polypeptide binding]; other site 272630000439 DNA binding site [nucleotide binding] 272630000440 Helix-turn-helix domains; Region: HTH; cl00088 272630000441 recombination factor protein RarA; Reviewed; Region: PRK13342 272630000442 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 272630000443 Walker A motif; other site 272630000444 ATP binding site [chemical binding]; other site 272630000445 Walker B motif; other site 272630000446 arginine finger; other site 272630000447 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272630000448 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 272630000449 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 272630000450 active site 272630000451 Zn binding site [ion binding]; other site 272630000452 putative chaperone; Provisional; Region: PRK11678 272630000453 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272630000454 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 272630000455 RNA binding surface [nucleotide binding]; other site 272630000456 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272630000457 active site 272630000458 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272630000459 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 272630000460 motif II; other site 272630000461 ATP12 chaperone protein; Region: ATP12; cl02228 272630000462 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 272630000463 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630000464 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630000465 tellurium resistance terB-like protein; Region: terB_like; cl11965 272630000466 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630000467 Helix-turn-helix domains; Region: HTH; cl00088 272630000468 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272630000469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000470 NAD+ binding site [chemical binding]; other site 272630000471 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272630000472 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630000473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000474 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 272630000475 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 272630000476 putative NAD(P) binding site [chemical binding]; other site 272630000477 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 272630000478 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 272630000479 tetramer interface [polypeptide binding]; other site 272630000480 heme binding pocket [chemical binding]; other site 272630000481 NADPH binding site [chemical binding]; other site 272630000482 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, MeaA-like subfamily; contains various methylmalonyl coenzyme A (CoA) mutase (MCM)-like proteins similar to the Streptomyces cinnamonensis MeaA, Methylobacterium extorquens MeaA...; Region: MM_CoA_mutase_MeaA; cd03681 272630000483 putative active site [active] 272630000484 putative substrate binding site [chemical binding]; other site 272630000485 putative coenzyme B12 binding site [chemical binding]; other site 272630000486 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272630000487 B12 binding site [chemical binding]; other site 272630000488 cobalt ligand [ion binding]; other site 272630000489 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 272630000490 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272630000491 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 272630000492 NADP binding site [chemical binding]; other site 272630000493 homodimer interface [polypeptide binding]; other site 272630000494 active site 272630000495 substrate binding site [chemical binding]; other site 272630000496 Helix-turn-helix domains; Region: HTH; cl00088 272630000497 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272630000498 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272630000499 active site 272630000500 HIGH motif; other site 272630000501 dimer interface [polypeptide binding]; other site 272630000502 KMSKS motif; other site 272630000503 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 272630000504 substrate binding site [chemical binding]; other site 272630000505 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 272630000506 putative substrate binding pocket [chemical binding]; other site 272630000507 AC domain interface; other site 272630000508 catalytic triad [active] 272630000509 AB domain interface; other site 272630000510 membrane ATPase/protein kinase; Provisional; Region: PRK09435 272630000511 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 272630000512 Walker A; other site 272630000513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 272630000514 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 272630000515 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 272630000516 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630000517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630000518 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630000519 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272630000520 active site 272630000521 metal binding site [ion binding]; metal-binding site 272630000522 DNA binding site [nucleotide binding] 272630000523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000524 Walker A/P-loop; other site 272630000525 ATP binding site [chemical binding]; other site 272630000526 Q-loop/lid; other site 272630000527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000528 ABC transporter signature motif; other site 272630000529 Walker B; other site 272630000530 D-loop; other site 272630000531 H-loop/switch region; other site 272630000532 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 272630000533 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 272630000534 putative substrate translocation pore; other site 272630000535 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 272630000536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000537 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272630000538 Domain of unknown function (DUF427); Region: DUF427; cl00998 272630000539 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 272630000540 active site 272630000541 8-oxo-dGMP binding site [chemical binding]; other site 272630000542 nudix motif; other site 272630000543 metal binding site [ion binding]; metal-binding site 272630000544 Protein of unknown function (DUF541); Region: SIMPL; cl01077 272630000545 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 272630000546 heterotetramer interface [polypeptide binding]; other site 272630000547 active site pocket [active] 272630000548 cleavage site 272630000549 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 272630000550 catalytic residues [active] 272630000551 dimer interface [polypeptide binding]; other site 272630000552 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 272630000553 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 272630000554 Proline dehydrogenase; Region: Pro_dh; cl03282 272630000555 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 272630000556 Glutamate binding site [chemical binding]; other site 272630000557 NAD binding site [chemical binding]; other site 272630000558 catalytic residues [active] 272630000559 AsmA family; Region: AsmA; pfam05170 272630000560 AsmA-like C-terminal region; Region: AsmA_2; cl15864 272630000561 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 272630000562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000563 Family description; Region: UvrD_C_2; cl15862 272630000564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000565 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 272630000566 amphipathic channel; other site 272630000567 Asn-Pro-Ala signature motifs; other site 272630000568 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 272630000569 active site 272630000570 catalytic site [active] 272630000571 substrate binding site [chemical binding]; other site 272630000572 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 272630000573 Cupin domain; Region: Cupin_2; cl09118 272630000574 Cupin domain; Region: Cupin_2; cl09118 272630000575 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 272630000576 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272630000577 metal binding triad; other site 272630000578 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272630000579 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272630000580 metal binding triad; other site 272630000581 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 272630000582 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 272630000583 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 272630000584 dimerization interface [polypeptide binding]; other site 272630000585 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 272630000586 dimer interface [polypeptide binding]; other site 272630000587 phosphorylation site [posttranslational modification] 272630000588 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 272630000589 ATP binding site [chemical binding]; other site 272630000590 Mg2+ binding site [ion binding]; other site 272630000591 G-X-G motif; other site 272630000592 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 272630000593 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 272630000594 active site 272630000595 phosphorylation site [posttranslational modification] 272630000596 intermolecular recognition site; other site 272630000597 dimerization interface [polypeptide binding]; other site 272630000598 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 272630000599 DNA binding site [nucleotide binding] 272630000600 OsmC-like protein; Region: OsmC; cl00767 272630000601 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630000602 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630000603 Walker A/P-loop; other site 272630000604 ATP binding site [chemical binding]; other site 272630000605 Q-loop/lid; other site 272630000606 ABC transporter signature motif; other site 272630000607 Walker B; other site 272630000608 D-loop; other site 272630000609 H-loop/switch region; other site 272630000610 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 272630000611 LysE type translocator; Region: LysE; cl00565 272630000612 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630000613 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 272630000614 substrate binding pocket [chemical binding]; other site 272630000615 membrane-bound complex binding site; other site 272630000616 PII uridylyl-transferase; Provisional; Region: PRK05092 272630000617 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272630000618 metal binding triad; other site 272630000619 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 272630000620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630000621 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 272630000622 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 272630000623 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 272630000624 dimer interface [polypeptide binding]; other site 272630000625 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272630000626 Protein of unknown function (DUF497); Region: DUF497; cl01108 272630000627 prephenate dehydratase; Provisional; Region: PRK11899 272630000628 Prephenate dehydratase; Region: PDT; pfam00800 272630000629 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 272630000630 putative L-Phe binding site [chemical binding]; other site 272630000631 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 272630000632 active site 272630000633 Cytochrome c; Region: Cytochrom_C; cl11414 272630000634 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272630000635 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_14; cd08497 272630000636 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272630000637 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_14; cd08497 272630000638 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 272630000639 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 272630000640 dimer interface [polypeptide binding]; other site 272630000641 conserved gate region; other site 272630000642 putative PBP binding loops; other site 272630000643 ABC-ATPase subunit interface; other site 272630000644 Predicted acetyltransferase [General function prediction only]; Region: COG3153 272630000645 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630000646 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 272630000647 AMP-binding enzyme; Region: AMP-binding; cl15778 272630000648 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630000649 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 272630000650 putative metal binding site; other site 272630000651 Cytochrome c; Region: Cytochrom_C; cl11414 272630000652 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 272630000653 gating phenylalanine in ion channel; other site 272630000654 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 272630000655 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630000656 DNA-binding site [nucleotide binding]; DNA binding site 272630000657 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 272630000658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630000659 homodimer interface [polypeptide binding]; other site 272630000660 catalytic residue [active] 272630000661 Protein of unknown function (DUF983); Region: DUF983; cl02211 272630000662 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 272630000663 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 272630000664 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630000665 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 272630000666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630000667 DNA-binding site [nucleotide binding]; DNA binding site 272630000668 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 272630000669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630000670 homodimer interface [polypeptide binding]; other site 272630000671 catalytic residue [active] 272630000672 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 272630000673 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272630000674 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 272630000675 putative active site [active] 272630000676 catalytic triad [active] 272630000677 putative dimer interface [polypeptide binding]; other site 272630000678 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 272630000679 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 272630000680 FeS/SAM binding site; other site 272630000681 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630000682 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 272630000683 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 272630000684 dimerization interface [polypeptide binding]; other site 272630000685 putative ATP binding site [chemical binding]; other site 272630000686 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 272630000687 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 272630000688 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 272630000689 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 272630000690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000691 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630000692 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 272630000693 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272630000694 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 272630000695 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 272630000696 conserved cys residue [active] 272630000697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630000698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630000699 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 272630000700 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 272630000701 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 272630000702 PAS domain; Region: PAS_9; pfam13426 272630000703 PAS domain S-box; Region: sensory_box; TIGR00229 272630000704 PAS domain S-box; Region: sensory_box; TIGR00229 272630000705 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 272630000706 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 272630000707 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630000708 DNA binding residues [nucleotide binding] 272630000709 dimerization interface [polypeptide binding]; other site 272630000710 CsbD-like; Region: CsbD; cl15799 272630000711 CsbD-like; Region: CsbD; cl15799 272630000712 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 272630000713 CsbD-like; Region: CsbD; cl15799 272630000714 CsbD-like; Region: CsbD; cl15799 272630000715 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 272630000716 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 272630000717 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 272630000718 metal binding site [ion binding]; metal-binding site 272630000719 putative dimer interface [polypeptide binding]; other site 272630000720 Protein of unknown function (DUF525); Region: DUF525; cl01119 272630000721 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 272630000722 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630000723 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630000724 trimer interface [polypeptide binding]; other site 272630000725 active site 272630000726 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630000727 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 272630000728 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 272630000729 putative MPT binding site; other site 272630000730 Sugar fermentation stimulation protein; Region: SfsA; cl00647 272630000731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000732 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630000733 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630000734 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630000735 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630000736 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272630000737 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 272630000738 Walker A/P-loop; other site 272630000739 ATP binding site [chemical binding]; other site 272630000740 Q-loop/lid; other site 272630000741 ABC transporter signature motif; other site 272630000742 Walker B; other site 272630000743 D-loop; other site 272630000744 H-loop/switch region; other site 272630000745 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 272630000746 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 272630000747 4Fe-4S binding domain; Region: Fer4; cl02805 272630000748 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272630000749 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 272630000750 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 272630000751 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 272630000752 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 272630000753 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_Formate-Dh-Na-like; cd02752 272630000754 [4Fe-4S] binding site [ion binding]; other site 272630000755 molybdopterin cofactor binding site; other site 272630000756 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 272630000757 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 272630000758 molybdopterin cofactor binding site; other site 272630000759 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 272630000760 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 272630000761 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 272630000762 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 272630000763 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 272630000764 Helix-turn-helix domains; Region: HTH; cl00088 272630000765 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 272630000766 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630000767 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630000768 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630000769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272630000770 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 272630000771 HrcA protein C terminal domain; Region: HrcA; pfam01628 272630000772 ribonuclease PH; Reviewed; Region: rph; PRK00173 272630000773 Ribonuclease PH; Region: RNase_PH_bact; cd11362 272630000774 hexamer interface [polypeptide binding]; other site 272630000775 active site 272630000776 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 272630000777 active site 272630000778 dimerization interface [polypeptide binding]; other site 272630000779 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 272630000780 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 272630000781 FeS/SAM binding site; other site 272630000782 HemN C-terminal domain; Region: HemN_C; pfam06969 272630000783 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630000784 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 272630000785 putative ligand binding site [chemical binding]; other site 272630000786 Predicted methyltransferases [General function prediction only]; Region: COG0313 272630000787 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630000788 Restriction endonuclease; Region: Mrr_cat; cl00516 272630000789 Response regulator receiver domain; Region: Response_reg; pfam00072 272630000790 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 272630000791 active site 272630000792 phosphorylation site [posttranslational modification] 272630000793 intermolecular recognition site; other site 272630000794 dimerization interface [polypeptide binding]; other site 272630000795 NMT1-like family; Region: NMT1_2; cl15260 272630000796 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272630000797 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 272630000798 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 272630000799 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630000800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630000801 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630000802 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 272630000803 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 272630000804 active site 272630000805 Zn binding site [ion binding]; other site 272630000806 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 272630000807 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 272630000808 Potassium binding sites [ion binding]; other site 272630000809 Cesium cation binding sites [ion binding]; other site 272630000810 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 272630000811 metal-binding site [ion binding] 272630000812 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 272630000813 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 272630000814 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 272630000815 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 272630000816 active site 272630000817 phosphorylation site [posttranslational modification] 272630000818 intermolecular recognition site; other site 272630000819 dimerization interface [polypeptide binding]; other site 272630000820 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272630000821 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272630000822 active site 272630000823 Riboflavin kinase; Region: Flavokinase; cl03312 272630000824 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272630000825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000826 Bacterial SH3 domain; Region: SH3_3; cl02551 272630000827 Bacterial SH3 domain; Region: SH3_3; cl02551 272630000828 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272630000829 metal binding site 2 [ion binding]; metal-binding site 272630000830 putative DNA binding helix; other site 272630000831 metal binding site 1 [ion binding]; metal-binding site 272630000832 dimer interface [polypeptide binding]; other site 272630000833 structural Zn2+ binding site [ion binding]; other site 272630000834 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 272630000835 active site 1 [active] 272630000836 dimer interface [polypeptide binding]; other site 272630000837 active site 2 [active] 272630000838 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 272630000839 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 272630000840 dimer interface [polypeptide binding]; other site 272630000841 active site 272630000842 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 272630000843 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272630000844 NAD binding site [chemical binding]; other site 272630000845 homotetramer interface [polypeptide binding]; other site 272630000846 homodimer interface [polypeptide binding]; other site 272630000847 substrate binding site [chemical binding]; other site 272630000848 active site 272630000849 FliP family; Region: FliP; cl00593 272630000850 DoxX; Region: DoxX; cl00976 272630000851 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 272630000852 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630000853 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630000854 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630000855 Fe-S metabolism associated domain; Region: SufE; cl00951 272630000856 PAS domain S-box; Region: sensory_box; TIGR00229 272630000857 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 272630000858 putative active site [active] 272630000859 heme pocket [chemical binding]; other site 272630000860 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630000861 Histidine kinase; Region: HisKA_2; cl06527 272630000862 hypothetical protein; Provisional; Region: PRK13560 272630000863 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 272630000864 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272630000865 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630000866 dimer interface [polypeptide binding]; other site 272630000867 active site 272630000868 glutathione binding site [chemical binding]; other site 272630000869 metal binding site [ion binding]; metal-binding site 272630000870 aminopeptidase N; Provisional; Region: pepN; PRK14015 272630000871 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 272630000872 Zn binding site [ion binding]; other site 272630000873 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 272630000874 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 272630000875 PAS fold; Region: PAS_3; pfam08447 272630000876 putative active site [active] 272630000877 heme pocket [chemical binding]; other site 272630000878 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272630000879 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 272630000880 dimer interface [polypeptide binding]; other site 272630000881 phosphorylation site [posttranslational modification] 272630000882 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 272630000883 ATP binding site [chemical binding]; other site 272630000884 Mg2+ binding site [ion binding]; other site 272630000885 G-X-G motif; other site 272630000886 Arginase family; Region: Arginase; cl00306 272630000887 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272630000888 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272630000889 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272630000890 PilZ domain; Region: PilZ; cl01260 272630000891 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 272630000892 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272630000893 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 272630000894 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 272630000895 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; cl15754 272630000896 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630000897 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 272630000898 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630000899 catalytic residue [active] 272630000900 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272630000901 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272630000902 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 272630000903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000904 NAD(P) binding site [chemical binding]; other site 272630000905 active site 272630000906 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630000907 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 272630000908 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 272630000909 dimer interface [polypeptide binding]; other site 272630000910 active site 272630000911 YceG-like family; Region: YceG; pfam02618 272630000912 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272630000913 dimerization interface [polypeptide binding]; other site 272630000914 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 272630000915 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 272630000916 motif II; other site 272630000917 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 272630000918 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 272630000919 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 272630000920 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 272630000921 Acetokinase family; Region: Acetate_kinase; cl01029 272630000922 propionate/acetate kinase; Provisional; Region: PRK12379 272630000923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630000924 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 272630000925 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630000926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000927 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272630000928 Walker A/P-loop; other site 272630000929 ATP binding site [chemical binding]; other site 272630000930 Q-loop/lid; other site 272630000931 ABC transporter signature motif; other site 272630000932 Walker B; other site 272630000933 D-loop; other site 272630000934 H-loop/switch region; other site 272630000935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000936 Walker A/P-loop; other site 272630000937 ATP binding site [chemical binding]; other site 272630000938 Q-loop/lid; other site 272630000939 ABC transporter signature motif; other site 272630000940 Walker B; other site 272630000941 D-loop; other site 272630000942 H-loop/switch region; other site 272630000943 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272630000944 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272630000945 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630000946 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272630000947 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630000948 putative phosphoketolase; Provisional; Region: PRK05261 272630000949 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 272630000950 TPP-binding site; other site 272630000951 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 272630000952 XFP C-terminal domain; Region: XFP_C; pfam09363 272630000953 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 272630000954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000955 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272630000956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000957 Walker A/P-loop; other site 272630000958 ATP binding site [chemical binding]; other site 272630000959 Q-loop/lid; other site 272630000960 ABC transporter signature motif; other site 272630000961 Walker B; other site 272630000962 D-loop; other site 272630000963 H-loop/switch region; other site 272630000964 TOBE domain; Region: TOBE_2; cl01440 272630000965 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 272630000966 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272630000967 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272630000968 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 272630000969 ABC-ATPase subunit interface; other site 272630000970 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 272630000971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630000972 Kelch motif; Region: Kelch_1; cl02701 272630000973 Kelch motif; Region: Kelch_1; cl02701 272630000974 Kelch motif; Region: Kelch_1; cl02701 272630000975 Kelch motif; Region: Kelch_1; cl02701 272630000976 Kelch motif; Region: Kelch_1; cl02701 272630000977 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 272630000978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630000981 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 272630000982 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 272630000983 ligand binding site [chemical binding]; other site 272630000984 flexible hinge region; other site 272630000985 Cupin domain; Region: Cupin_2; cl09118 272630000986 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 272630000987 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272630000988 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272630000989 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 272630000990 dimer interface [polypeptide binding]; other site 272630000991 conserved gate region; other site 272630000992 putative PBP binding loops; other site 272630000993 ABC-ATPase subunit interface; other site 272630000994 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 272630000995 dimer interface [polypeptide binding]; other site 272630000996 conserved gate region; other site 272630000997 putative PBP binding loops; other site 272630000998 ABC-ATPase subunit interface; other site 272630000999 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 272630001000 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 272630001001 Walker A/P-loop; other site 272630001002 ATP binding site [chemical binding]; other site 272630001003 Q-loop/lid; other site 272630001004 ABC transporter signature motif; other site 272630001005 Walker B; other site 272630001006 D-loop; other site 272630001007 H-loop/switch region; other site 272630001008 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 272630001009 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272630001010 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630001011 minor groove reading motif; other site 272630001012 helix-hairpin-helix signature motif; other site 272630001013 substrate binding pocket [chemical binding]; other site 272630001014 active site 272630001015 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272630001016 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 272630001017 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272630001018 ATP binding site [chemical binding]; other site 272630001019 active site 272630001020 substrate binding site [chemical binding]; other site 272630001021 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630001022 Probable Catalytic site; other site 272630001023 metal-binding site 272630001024 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 272630001025 active site 272630001026 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630001027 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630001028 Probable Catalytic site; other site 272630001029 metal-binding site 272630001030 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272630001031 Protein of unknown function DUF45; Region: DUF45; cl00636 272630001032 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 272630001033 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272630001034 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 272630001035 dimer interface [polypeptide binding]; other site 272630001036 phosphorylation site [posttranslational modification] 272630001037 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 272630001038 ATP binding site [chemical binding]; other site 272630001039 Mg2+ binding site [ion binding]; other site 272630001040 G-X-G motif; other site 272630001041 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 272630001042 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 272630001043 active site 272630001044 phosphorylation site [posttranslational modification] 272630001045 intermolecular recognition site; other site 272630001046 dimerization interface [polypeptide binding]; other site 272630001047 Helix-turn-helix domains; Region: HTH; cl00088 272630001048 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 272630001049 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272630001050 putative active site [active] 272630001051 catalytic triad [active] 272630001052 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 272630001053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630001054 active site 272630001055 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 272630001056 active site 272630001057 dimerization interface [polypeptide binding]; other site 272630001058 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 272630001059 active site 272630001060 pyrophosphate binding site [ion binding]; other site 272630001061 thiamine phosphate binding site [chemical binding]; other site 272630001062 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 272630001063 ThiS interaction site; other site 272630001064 putative active site [active] 272630001065 tetramer interface [polypeptide binding]; other site 272630001066 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 272630001067 thiS-thiF/thiG interaction site; other site 272630001068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001069 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 272630001070 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 272630001071 cyclase homology domain; Region: CHD; cd07302 272630001072 nucleotidyl binding site; other site 272630001073 metal binding site [ion binding]; metal-binding site 272630001074 dimer interface [polypeptide binding]; other site 272630001075 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 272630001076 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272630001077 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272630001078 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 272630001079 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 272630001080 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630001081 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272630001082 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 272630001083 DNA binding residues [nucleotide binding] 272630001084 DNA primase, catalytic core; Region: dnaG; TIGR01391 272630001085 CHC2 zinc finger; Region: zf-CHC2; cl15369 272630001086 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272630001087 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 272630001088 active site 272630001089 metal binding site [ion binding]; metal-binding site 272630001090 interdomain interaction site; other site 272630001091 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272630001092 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 272630001093 Major royal jelly protein; Region: MRJP; pfam03022 272630001094 GatB domain; Region: GatB_Yqey; cl11497 272630001095 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272630001096 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 272630001097 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272630001098 catalytic site [active] 272630001099 subunit interface [polypeptide binding]; other site 272630001100 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 272630001101 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630001102 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 272630001103 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001104 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272630001105 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12692 272630001106 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630001107 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001108 SAF domain; Region: SAF; cl00555 272630001109 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 272630001110 Flagellar P-ring protein; Region: FlgI; pfam02119 272630001111 MgtE intracellular N domain; Region: MgtE_N; cl15244 272630001112 Flagellar L-ring protein; Region: FlgH; cl00905 272630001113 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 272630001114 FliP family; Region: FliP; cl00593 272630001115 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272630001116 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272630001117 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272630001118 flagellar motor protein MotB; Validated; Region: motB; PRK05996 272630001119 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272630001120 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272630001121 ligand binding site [chemical binding]; other site 272630001122 chemotaxis protein; Reviewed; Region: PRK12798 272630001123 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272630001124 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 catalyze...; Region: LT_GEWL; cd00254 272630001125 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630001126 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 272630001127 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 272630001128 active site 272630001129 intermolecular recognition site; other site 272630001130 dimerization interface [polypeptide binding]; other site 272630001131 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 272630001132 DNA binding site [nucleotide binding] 272630001133 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK13109 272630001134 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 272630001135 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272630001136 FliG C-terminal domain; Region: FliG_C; pfam01706 272630001137 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272630001138 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 272630001139 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 272630001140 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272630001141 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272630001142 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272630001143 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 272630001144 active site 272630001145 HslU subunit interaction site [polypeptide binding]; other site 272630001146 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 272630001147 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 272630001148 Walker A motif; other site 272630001149 ATP binding site [chemical binding]; other site 272630001150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001151 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630001152 threonine and homoserine efflux system; Provisional; Region: PRK10532 272630001153 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630001154 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 272630001155 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 272630001156 [2Fe-2S] cluster binding site [ion binding]; other site 272630001157 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 272630001158 hydrophobic ligand binding site; other site 272630001159 signal recognition particle protein; Provisional; Region: PRK10867 272630001160 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272630001161 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 272630001162 P loop; other site 272630001163 GTP binding site [chemical binding]; other site 272630001164 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272630001165 Chorismate mutase type II; Region: CM_2; cl00693 272630001166 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 272630001167 RimM N-terminal domain; Region: RimM; pfam01782 272630001168 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 272630001169 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272630001170 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 272630001171 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 272630001172 S-adenosylmethionine binding site [chemical binding]; other site 272630001173 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 272630001174 serC leader; MexAM1_META1pmiscRNA1 272630001175 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; cd01494 272630001176 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630001177 catalytic residue [active] 272630001178 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 272630001179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001180 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 272630001181 putative L-serine binding site [chemical binding]; other site 272630001182 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 272630001183 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 272630001184 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 272630001185 Protein of unknown function (DUF3140); Region: DUF3140; pfam11338 272630001186 multidrug efflux protein; Reviewed; Region: PRK01766 272630001187 MatE; Region: MatE; cl10513 272630001188 MatE; Region: MatE; cl10513 272630001189 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630001190 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 272630001191 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272630001192 Walker A/P-loop; other site 272630001193 ATP binding site [chemical binding]; other site 272630001194 Q-loop/lid; other site 272630001195 ABC transporter signature motif; other site 272630001196 Walker B; other site 272630001197 D-loop; other site 272630001198 H-loop/switch region; other site 272630001199 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272630001200 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630001201 dimer interface [polypeptide binding]; other site 272630001202 putative CheW interface [polypeptide binding]; other site 272630001203 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 272630001204 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 272630001205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 272630001206 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 272630001207 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 272630001208 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 272630001209 N-terminal plug; other site 272630001210 ligand-binding site [chemical binding]; other site 272630001211 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 272630001212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001213 Family description; Region: UvrD_C_2; cl15862 272630001214 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 272630001215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630001216 homodimer interface [polypeptide binding]; other site 272630001217 catalytic residue [active] 272630001218 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630001219 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 272630001220 DNA binding site [nucleotide binding] 272630001221 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272630001222 flagellin; Reviewed; Region: PRK12687 272630001223 PilZ domain; Region: PilZ; cl01260 272630001224 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272630001225 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 272630001226 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 272630001227 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001228 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 272630001229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001230 Walker A motif; other site 272630001231 ATP binding site [chemical binding]; other site 272630001232 Walker B motif; other site 272630001233 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 272630001234 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630001235 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 272630001236 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001237 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 272630001238 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001239 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 272630001240 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272630001241 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272630001242 Flagellar protein FlaF; Region: FlaF; cl11454 272630001243 Flagellar protein FlbT; Region: FlbT; cl11455 272630001244 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 272630001245 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272630001246 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272630001247 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272630001248 FHIPEP family; Region: FHIPEP; pfam00771 272630001249 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272630001250 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 272630001251 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 272630001252 inhibitor site; inhibition site 272630001253 active site 272630001254 dimer interface [polypeptide binding]; other site 272630001255 catalytic residue [active] 272630001256 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 272630001257 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630001258 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272630001259 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 272630001260 putative active site [active] 272630001261 heme pocket [chemical binding]; other site 272630001262 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 272630001263 dimer interface [polypeptide binding]; other site 272630001264 phosphorylation site [posttranslational modification] 272630001265 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 272630001266 ATP binding site [chemical binding]; other site 272630001267 Mg2+ binding site [ion binding]; other site 272630001268 G-X-G motif; other site 272630001269 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272630001270 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272630001271 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 272630001272 Helix-turn-helix domains; Region: HTH; cl00088 272630001273 Transglycosylase; Region: Transgly; cl07896 272630001274 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272630001275 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630001276 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630001277 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630001278 dimer interface [polypeptide binding]; other site 272630001279 putative CheW interface [polypeptide binding]; other site 272630001280 AMP nucleosidase; Provisional; Region: PRK08292 272630001281 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 272630001282 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272630001283 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 272630001284 homodimer interaction site [polypeptide binding]; other site 272630001285 cofactor binding site; other site 272630001286 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630001287 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630001288 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 272630001289 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 272630001290 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 272630001291 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 272630001292 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630001293 ligand binding site; other site 272630001294 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272630001295 ethanolamine permease; Region: 2A0305; TIGR00908 272630001296 Spore germination protein; Region: Spore_permease; cl15802 272630001297 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272630001298 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272630001299 catalytic triad [active] 272630001300 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272630001301 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 272630001302 active site 272630001303 catalytic tetrad [active] 272630001304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001305 hypothetical protein; Validated; Region: PRK05868 272630001306 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272630001307 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 272630001308 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 272630001309 OpgC protein; Region: OpgC_C; cl00792 272630001310 Acyltransferase family; Region: Acyl_transf_3; pfam01757 272630001311 EVE domain; Region: EVE; cl00728 272630001312 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 272630001313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001314 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272630001315 PAS domain; Region: PAS_9; pfam13426 272630001316 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 272630001317 putative active site [active] 272630001318 heme pocket [chemical binding]; other site 272630001319 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 272630001320 PAS domain; Region: PAS_9; pfam13426 272630001321 putative active site [active] 272630001322 heme pocket [chemical binding]; other site 272630001323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630001324 dimer interface [polypeptide binding]; other site 272630001325 putative CheW interface [polypeptide binding]; other site 272630001326 UGMP family protein; Validated; Region: PRK09604 272630001327 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272630001328 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 272630001329 active site 272630001330 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 272630001331 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 272630001332 HemY protein N-terminus; Region: HemY_N; pfam07219 272630001333 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 272630001334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630001335 dimer interface [polypeptide binding]; other site 272630001336 putative CheW interface [polypeptide binding]; other site 272630001337 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 272630001338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001339 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 272630001340 nucleotide binding region [chemical binding]; other site 272630001341 ATP-binding site [chemical binding]; other site 272630001342 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 272630001343 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272630001344 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272630001345 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 includes...; Region: RuvC_resolvase; cl00243 272630001346 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 272630001347 RNA binding site [nucleotide binding]; other site 272630001348 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272630001349 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 272630001350 Walker A/P-loop; other site 272630001351 ATP binding site [chemical binding]; other site 272630001352 Q-loop/lid; other site 272630001353 ABC transporter signature motif; other site 272630001354 Walker B; other site 272630001355 D-loop; other site 272630001356 H-loop/switch region; other site 272630001357 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 272630001358 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272630001359 FHIPEP family; Region: FHIPEP; pfam00771 272630001360 Cache domain; Region: Cache_2; cl07034 272630001361 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 272630001362 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272630001363 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630001364 dimer interface [polypeptide binding]; other site 272630001365 putative CheW interface [polypeptide binding]; other site 272630001366 Predicted integral membrane protein [Function unknown]; Region: COG0392 272630001367 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272630001368 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 272630001369 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 272630001370 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272630001371 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 272630001372 Walker A motif/ATP binding site; other site 272630001373 Walker B motif; other site 272630001374 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630001375 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 272630001376 active site 272630001377 phosphorylation site [posttranslational modification] 272630001378 intermolecular recognition site; other site 272630001379 dimerization interface [polypeptide binding]; other site 272630001380 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 272630001381 DNA binding site [nucleotide binding] 272630001382 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 272630001383 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 272630001384 trimer interface [polypeptide binding]; other site 272630001385 active site 272630001386 substrate binding site [chemical binding]; other site 272630001387 CoA binding site [chemical binding]; other site 272630001388 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 272630001389 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272630001390 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272630001391 putative NAD(P) binding site [chemical binding]; other site 272630001392 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272630001393 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 272630001394 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630001395 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630001396 Probable Catalytic site; other site 272630001397 metal-binding site 272630001398 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 272630001399 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630001400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630001401 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 272630001402 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 272630001403 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 272630001404 metal binding site [ion binding]; metal-binding site 272630001405 putative dimer interface [polypeptide binding]; other site 272630001406 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272630001407 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; cl00159 272630001408 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630001409 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272630001410 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272630001411 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630001412 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630001413 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630001414 CrcB-like protein; Region: CRCB; cl09114 272630001415 EamA-like transporter family; Region: EamA; cl01037 272630001416 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 272630001417 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630001418 Helix-turn-helix domains; Region: HTH; cl00088 272630001419 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 272630001420 active site 272630001421 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630001422 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630001423 Probable Catalytic site; other site 272630001424 metal-binding site 272630001425 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 272630001426 substrate binding site; other site 272630001427 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 272630001428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001429 NAD(P) binding site [chemical binding]; other site 272630001430 active site 272630001431 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 272630001432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001433 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 272630001434 Cupin domain; Region: Cupin_2; cl09118 272630001435 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630001436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001437 NAD(P) binding site [chemical binding]; other site 272630001438 active site 272630001439 Response regulator receiver domain; Region: Response_reg; pfam00072 272630001440 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 272630001441 active site 272630001442 phosphorylation site [posttranslational modification] 272630001443 intermolecular recognition site; other site 272630001444 dimerization interface [polypeptide binding]; other site 272630001445 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 272630001446 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 272630001447 inhibitor-cofactor binding pocket; inhibition site 272630001448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630001449 catalytic residue [active] 272630001450 glycine dehydrogenase; Provisional; Region: PRK05367 272630001451 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 272630001452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630001453 catalytic residue [active] 272630001454 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 272630001455 tetramer interface [polypeptide binding]; other site 272630001456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630001457 catalytic residue [active] 272630001458 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 272630001459 lipoyl attachment site [posttranslational modification]; other site 272630001460 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 272630001461 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272630001462 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630001463 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 272630001464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630001465 catalytic residue [active] 272630001466 NlpC/P60 family; Region: NLPC_P60; cl11438 272630001467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001468 NAD(P) binding site [chemical binding]; other site 272630001469 active site 272630001470 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272630001471 MgtC family; Region: MgtC; pfam02308 272630001472 MoxR-like ATPases [General function prediction only]; Region: COG0714 272630001473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001474 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 272630001475 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 272630001476 metal ion-dependent adhesion site (MIDAS); other site 272630001477 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 272630001478 metal ion-dependent adhesion site (MIDAS); other site 272630001479 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272630001480 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 272630001481 Oxygen tolerance; Region: BatD; pfam13584 272630001482 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 272630001483 putative heme binding pocket [chemical binding]; other site 272630001484 EamA-like transporter family; Region: EamA; cl01037 272630001485 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 272630001486 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 272630001487 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 272630001488 putative active site; other site 272630001489 putative triphosphate binding site [ion binding]; other site 272630001490 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 272630001491 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 272630001492 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 272630001493 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 272630001494 PAS domain; Region: PAS_9; pfam13426 272630001495 putative active site [active] 272630001496 heme pocket [chemical binding]; other site 272630001497 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 272630001498 PAS domain; Region: PAS_9; pfam13426 272630001499 putative active site [active] 272630001500 heme pocket [chemical binding]; other site 272630001501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630001502 Histidine kinase; Region: HisKA_2; cl06527 272630001503 malonyl-CoA synthase; Validated; Region: PRK07514 272630001504 AMP-binding enzyme; Region: AMP-binding; cl15778 272630001505 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630001506 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 272630001507 HI0933-like protein; Region: HI0933_like; pfam03486 272630001508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001510 Integral membrane protein TerC family; Region: TerC; cl10468 272630001511 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 272630001512 intracellular protease, PfpI family; Region: PfpI; TIGR01382 272630001513 proposed catalytic triad [active] 272630001514 conserved cys residue [active] 272630001515 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 protein; Region: CSP_CDS; cd04458 272630001516 DNA-binding site [nucleotide binding]; DNA binding site 272630001517 RNA-binding motif; other site 272630001518 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 272630001519 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 272630001520 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 272630001521 Permease; Region: Permease; cl00510 272630001522 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 272630001523 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 272630001524 Walker A/P-loop; other site 272630001525 ATP binding site [chemical binding]; other site 272630001526 Q-loop/lid; other site 272630001527 ABC transporter signature motif; other site 272630001528 Walker B; other site 272630001529 D-loop; other site 272630001530 H-loop/switch region; other site 272630001531 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 272630001532 mce related protein; Region: MCE; pfam02470 272630001533 Protein of unknown function (DUF330); Region: DUF330; cl01135 272630001534 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 cysteine...; Region: CysQ; cd01638 272630001535 active site 272630001536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 272630001537 Ribosome modulation factor; Region: RMF; cl01207 272630001538 UbiA prenyltransferase family; Region: UbiA; cl00337 272630001539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 272630001540 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 272630001541 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272630001542 active site 272630001543 homotetramer interface [polypeptide binding]; other site 272630001544 homodimer interface [polypeptide binding]; other site 272630001545 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 272630001546 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 272630001547 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 272630001548 dimer interface [polypeptide binding]; other site 272630001549 ADP-ribose binding site [chemical binding]; other site 272630001550 active site 272630001551 nudix motif; other site 272630001552 metal binding site [ion binding]; metal-binding site 272630001553 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 272630001554 PLA2_like: Phospholipase A2, a super-family of secretory and cytosolic enzymes; the latter are either Ca dependent or Ca independent. PLA2 cleaves the sn-2 position of the glycerol backbone of phospholipids (PC or phosphatidylethanolamine), usually in a...; Region: PLA2_like; cl05417 272630001555 primary metal binding site; other site 272630001556 catalytic residues [active] 272630001557 Predicted aspartyl protease [General function prediction only]; Region: COG3577 272630001558 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 272630001559 catalytic motif [active] 272630001560 Catalytic residue [active] 272630001561 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 272630001562 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 272630001563 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 272630001564 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 272630001565 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272630001566 putative dimer interface [polypeptide binding]; other site 272630001567 active site pocket [active] 272630001568 putative cataytic base [active] 272630001569 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 272630001570 dimer interface [polypeptide binding]; other site 272630001571 phosphorylation site [posttranslational modification] 272630001572 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 272630001573 ATP binding site [chemical binding]; other site 272630001574 Mg2+ binding site [ion binding]; other site 272630001575 G-X-G motif; other site 272630001576 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272630001577 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; cl00159 272630001578 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630001579 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630001580 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630001581 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630001582 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630001583 PAS fold; Region: PAS_4; pfam08448 272630001584 GAF domain; Region: GAF_2; pfam13185 272630001585 GAF domain; Region: GAF; cl15785 272630001586 GAF domain; Region: GAF_2; pfam13185 272630001587 GAF domain; Region: GAF; cl15785 272630001588 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 272630001589 PAS domain; Region: PAS_9; pfam13426 272630001590 putative active site [active] 272630001591 heme pocket [chemical binding]; other site 272630001592 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272630001593 GAF domain; Region: GAF; cl15785 272630001594 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 272630001595 PAS fold; Region: PAS_3; pfam08447 272630001596 putative active site [active] 272630001597 heme pocket [chemical binding]; other site 272630001598 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630001599 Histidine kinase; Region: HisKA_2; cl06527 272630001600 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272630001601 Amidase; Region: Amidase; cl11426 272630001602 Amidase; Region: Amidase; cl11426 272630001603 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 272630001604 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 272630001605 B1 nucleotide binding pocket [chemical binding]; other site 272630001606 B2 nucleotide binding pocket [chemical binding]; other site 272630001607 CAS motifs; other site 272630001608 active site 272630001609 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 272630001610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001611 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 272630001612 FAD binding domain; Region: FAD_binding_4; pfam01565 272630001613 Cytochrome c; Region: Cytochrom_C; cl11414 272630001614 Transcriptional regulators [Transcription]; Region: MarR; COG1846 272630001615 Helix-turn-helix domains; Region: HTH; cl00088 272630001616 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 272630001617 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 272630001618 Transglycosylase; Region: Transgly; cl07896 272630001619 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272630001620 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630001621 Flagellin N-methylase; Region: FliB; cl00497 272630001622 TadE-like protein; Region: TadE; cl10688 272630001623 TadE-like protein; Region: TadE; cl10688 272630001624 Predicted ATPase [General function prediction only]; Region: COG1485 272630001625 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 272630001626 active site 272630001627 DNA binding site [nucleotide binding] 272630001628 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 272630001629 RNA/DNA hybrid binding site [nucleotide binding]; other site 272630001630 active site 272630001631 glutathione synthetase; Provisional; Region: PRK05246 272630001632 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 272630001633 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630001634 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 272630001635 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 272630001636 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 272630001637 amidase catalytic site [active] 272630001638 Zn binding residues [ion binding]; other site 272630001639 substrate binding site [chemical binding]; other site 272630001640 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630001641 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 272630001642 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 272630001643 putative metal binding site [ion binding]; other site 272630001644 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 272630001645 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 272630001646 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 272630001647 FMN binding site [chemical binding]; other site 272630001648 active site 272630001649 catalytic residues [active] 272630001650 substrate binding site [chemical binding]; other site 272630001651 PAS fold; Region: PAS_7; pfam12860 272630001652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630001653 metal binding site [ion binding]; metal-binding site 272630001654 active site 272630001655 I-site; other site 272630001656 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 272630001657 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 272630001658 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 272630001659 active site 272630001660 phosphorylation site [posttranslational modification] 272630001661 intermolecular recognition site; other site 272630001662 dimerization interface [polypeptide binding]; other site 272630001663 Sensors of blue-light using FAD; Region: BLUF; cl04855 272630001664 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 272630001665 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630001666 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 272630001667 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001668 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 272630001669 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 272630001670 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630001671 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 272630001672 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08913 272630001673 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272630001674 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 272630001675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001676 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 272630001677 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272630001678 RF-1 domain; Region: RF-1; cl02875 272630001679 RF-1 domain; Region: RF-1; cl02875 272630001680 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 272630001681 GAF domain; Region: GAF; cl15785 272630001682 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 272630001683 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272630001684 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272630001685 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; cl09155 272630001686 aspartate kinase; Reviewed; Region: PRK06635 272630001687 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 272630001688 putative nucleotide binding site [chemical binding]; other site 272630001689 putative catalytic residues [active] 272630001690 putative Mg ion binding site [ion binding]; other site 272630001691 putative aspartate binding site [chemical binding]; other site 272630001692 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 272630001693 putative allosteric regulatory site; other site 272630001694 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 272630001695 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 272630001696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001697 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 272630001698 substrate binding site [chemical binding]; other site 272630001699 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 272630001700 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272630001701 NAD(P) binding site [chemical binding]; other site 272630001702 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 includes...; Region: RuvC_resolvase; cd00529 272630001703 active site 272630001704 putative DNA-binding cleft [nucleotide binding]; other site 272630001705 dimer interface [polypeptide binding]; other site 272630001706 YceI-like domain; Region: YceI; cl01001 272630001707 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272630001708 RuvA N terminal domain; Region: RuvA_N; pfam01330 272630001709 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 272630001710 Response regulator receiver domain; Region: Response_reg; pfam00072 272630001711 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 272630001712 active site 272630001713 phosphorylation site [posttranslational modification] 272630001714 intermolecular recognition site; other site 272630001715 dimerization interface [polypeptide binding]; other site 272630001716 Helix-turn-helix domains; Region: HTH; cl00088 272630001717 Rrf2 family protein; Region: rrf2_super; TIGR00738 272630001718 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 272630001719 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 272630001720 heme-binding site [chemical binding]; other site 272630001721 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 272630001722 FAD binding pocket [chemical binding]; other site 272630001723 FAD binding motif [chemical binding]; other site 272630001724 phosphate binding motif [ion binding]; other site 272630001725 beta-alpha-beta structure motif; other site 272630001726 NAD binding pocket [chemical binding]; other site 272630001727 Heme binding pocket [chemical binding]; other site 272630001728 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272630001729 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 272630001730 dimer interface [polypeptide binding]; other site 272630001731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630001732 catalytic residue [active] 272630001733 META domain; Region: META; cl01245 272630001734 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 272630001735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630001737 Helix-turn-helix domains; Region: HTH; cl00088 272630001738 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 272630001739 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 272630001740 putative dimerization interface [polypeptide binding]; other site 272630001741 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 272630001742 metal binding site [ion binding]; metal-binding site 272630001743 active site 272630001744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001745 active site 272630001746 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630001747 Transcriptional regulator; Region: Transcrip_reg; cl00361 272630001748 Rubrerythrin [Energy production and conversion]; Region: COG1592 272630001749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630001750 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 272630001751 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630001752 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272630001753 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 272630001754 oxyanion hole [active] 272630001755 OpgC protein; Region: OpgC_C; cl00792 272630001756 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272630001757 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630001758 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 272630001759 motif II; other site 272630001760 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 272630001761 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 272630001762 substrate binding site [chemical binding]; other site 272630001763 hexamer interface [polypeptide binding]; other site 272630001764 metal binding site [ion binding]; metal-binding site 272630001765 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272630001766 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630001767 Coenzyme A binding pocket [chemical binding]; other site 272630001768 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; cl09944 272630001769 ornithine decarboxylase; Provisional; Region: PRK13578 272630001770 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 272630001771 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630001772 catalytic residue [active] 272630001773 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272630001774 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 272630001775 MPT binding site; other site 272630001776 trimer interface [polypeptide binding]; other site 272630001777 adenylosuccinate lyase; Provisional; Region: PRK07492 272630001778 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 272630001779 tetramer interface [polypeptide binding]; other site 272630001780 active site 272630001781 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 272630001782 homodimer interface [polypeptide binding]; other site 272630001783 substrate-cofactor binding pocket; other site 272630001784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630001785 catalytic residue [active] 272630001786 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 272630001787 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 272630001788 GDP-binding site [chemical binding]; other site 272630001789 ACT binding site; other site 272630001790 IMP binding site; other site 272630001791 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 272630001792 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272630001793 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630001794 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 272630001795 DNA binding residues [nucleotide binding] 272630001796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630001797 metal binding site [ion binding]; metal-binding site 272630001798 active site 272630001799 I-site; other site 272630001800 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 272630001801 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630001802 Coenzyme A binding pocket [chemical binding]; other site 272630001803 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 272630001804 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 272630001805 RNA binding surface [nucleotide binding]; other site 272630001806 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272630001807 active site 272630001808 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 272630001809 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272630001810 GTP/Mg2+ binding site [chemical binding]; other site 272630001811 G4 box; other site 272630001812 G5 box; other site 272630001813 G1 box; other site 272630001814 Switch I region; other site 272630001815 G2 box; other site 272630001816 G3 box; other site 272630001817 Switch II region; other site 272630001818 Peptidase family M23; Region: Peptidase_M23; pfam01551 272630001819 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 272630001820 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 272630001821 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630001822 active site 272630001823 HIGH motif; other site 272630001824 nucleotide binding site [chemical binding]; other site 272630001825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630001826 active site 272630001827 KMSKS motif; other site 272630001828 heat shock protein 90; Provisional; Region: PRK05218 272630001829 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 272630001830 ATP binding site [chemical binding]; other site 272630001831 Mg2+ binding site [ion binding]; other site 272630001832 G-X-G motif; other site 272630001833 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 272630001834 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 272630001835 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 272630001836 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 272630001837 DAK2 domain; Region: Dak2; cl03685 272630001838 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 272630001839 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 272630001840 S-adenosylmethionine binding site [chemical binding]; other site 272630001841 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272630001842 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 272630001843 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 272630001844 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630001845 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272630001846 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; cl15754 272630001847 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 272630001848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630001849 metal binding site [ion binding]; metal-binding site 272630001850 active site 272630001851 I-site; other site 272630001852 Helix-turn-helix domains; Region: HTH; cl00088 272630001853 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272630001854 dimerization interface [polypeptide binding]; other site 272630001855 Predicted membrane protein [Function unknown]; Region: COG4125 272630001856 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272630001857 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 272630001858 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630001859 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272630001860 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272630001861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630001862 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272630001863 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 272630001864 non-specific DNA binding site [nucleotide binding]; other site 272630001865 salt bridge; other site 272630001866 sequence-specific DNA binding site [nucleotide binding]; other site 272630001867 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272630001868 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 272630001869 putative substrate translocation pore; other site 272630001870 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 272630001871 Bacterial sugar transferase; Region: Bac_transf; cl00939 272630001872 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272630001873 metal binding site 2 [ion binding]; metal-binding site 272630001874 putative DNA binding helix; other site 272630001875 metal binding site 1 [ion binding]; metal-binding site 272630001876 dimer interface [polypeptide binding]; other site 272630001877 structural Zn2+ binding site [ion binding]; other site 272630001878 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272630001879 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 272630001880 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272630001881 ABC-ATPase subunit interface; other site 272630001882 dimer interface [polypeptide binding]; other site 272630001883 putative PBP binding regions; other site 272630001884 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272630001885 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272630001886 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 272630001887 generic binding surface II; other site 272630001888 generic binding surface I; other site 272630001889 lytic murein transglycosylase; Region: MltB_2; TIGR02283 272630001890 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 272630001891 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 272630001892 putative active site pocket [active] 272630001893 dimerization interface [polypeptide binding]; other site 272630001894 putative catalytic residue [active] 272630001895 Recombination protein O N terminal; Region: RecO_N; cl15812 272630001896 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 272630001897 Recombination protein O C terminal; Region: RecO_C; pfam02565 272630001898 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 272630001899 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 in DNA...; Region: TOP4c; cd00187 272630001900 CAP-like domain; other site 272630001901 active site 272630001902 primary dimer interface [polypeptide binding]; other site 272630001903 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272630001904 structural tetrad; other site 272630001905 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 272630001906 rRNA binding site [nucleotide binding]; other site 272630001907 predicted 30S ribosome binding site; other site 272630001908 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 272630001909 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 272630001910 dimerization interface [polypeptide binding]; other site 272630001911 ligand binding site [chemical binding]; other site 272630001912 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272630001913 XdhC Rossmann domain; Region: XdhC_C; pfam13478 272630001914 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 272630001915 MPT binding site; other site 272630001916 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 272630001917 Ligand binding site; other site 272630001918 metal-binding site 272630001919 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 272630001920 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 272630001921 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 272630001922 active site 272630001923 cosubstrate binding site; other site 272630001924 substrate binding site [chemical binding]; other site 272630001925 catalytic site [active] 272630001926 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 272630001927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630001928 active site 272630001929 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 272630001930 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272630001931 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272630001932 Walker A/P-loop; other site 272630001933 ATP binding site [chemical binding]; other site 272630001934 Q-loop/lid; other site 272630001935 ABC transporter signature motif; other site 272630001936 Walker B; other site 272630001937 D-loop; other site 272630001938 H-loop/switch region; other site 272630001939 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 272630001940 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272630001941 FtsX-like permease family; Region: FtsX; cl15850 272630001942 prolyl-tRNA synthetase; Provisional; Region: PRK12325 272630001943 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 formation of...; Region: ProRS_core_prok; cd00779 272630001944 dimer interface [polypeptide binding]; other site 272630001945 motif 1; other site 272630001946 active site 272630001947 motif 2; other site 272630001948 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630001949 active site 272630001950 motif 3; other site 272630001951 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 272630001952 anticodon binding site; other site 272630001953 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 272630001954 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630001955 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 272630001956 dimer interface [polypeptide binding]; other site 272630001957 substrate binding site [chemical binding]; other site 272630001958 metal binding site [ion binding]; metal-binding site 272630001959 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272630001960 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630001961 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272630001962 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272630001963 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272630001964 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 272630001965 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 272630001966 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272630001967 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 272630001968 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272630001969 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 272630001970 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 272630001971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272630001972 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272630001973 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 272630001974 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 272630001975 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 272630001976 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 272630001977 4Fe-4S binding domain; Region: Fer4; cl02805 272630001978 4Fe-4S binding domain; Region: Fer4; cl02805 272630001979 NADH dehydrogenase; Region: NADHdh; cl00469 272630001980 NADH dehydrogenase subunit G; Validated; Region: PRK09130 272630001981 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 272630001982 catalytic loop [active] 272630001983 iron binding site [ion binding]; other site 272630001984 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 272630001985 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 272630001986 molybdopterin cofactor binding site; other site 272630001987 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 272630001988 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 272630001989 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272630001990 SLBB domain; Region: SLBB; pfam10531 272630001991 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 272630001992 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 272630001993 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 272630001994 putative dimer interface [polypeptide binding]; other site 272630001995 [2Fe-2S] cluster binding site [ion binding]; other site 272630001996 Uncharacterized conserved protein [Function unknown]; Region: COG3743 272630001997 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 272630001998 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 272630001999 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 272630002000 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 272630002001 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 272630002002 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272630002003 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630002004 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272630002005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272630002006 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630002007 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272630002008 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272630002009 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630002010 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 272630002011 IMP binding site; other site 272630002012 dimer interface [polypeptide binding]; other site 272630002013 partial ornithine binding site; other site 272630002014 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272630002015 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 272630002016 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272630002017 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 272630002018 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 272630002019 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272630002020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630002021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630002022 Helix-turn-helix domains; Region: HTH; cl00088 272630002023 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630002024 putative effector binding pocket; other site 272630002025 dimerization interface [polypeptide binding]; other site 272630002026 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 272630002027 trimer interface [polypeptide binding]; other site 272630002028 active site 272630002029 dimer interface [polypeptide binding]; other site 272630002030 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272630002031 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 272630002032 carboxyltransferase (CT) interaction site; other site 272630002033 biotinylation site [posttranslational modification]; other site 272630002034 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272630002035 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272630002036 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630002037 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272630002038 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630002039 Helix-turn-helix domains; Region: HTH; cl00088 272630002040 WHG domain; Region: WHG; pfam13305 272630002041 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272630002042 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 272630002043 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 272630002044 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 272630002045 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 272630002046 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272630002047 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272630002048 active site 272630002049 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272630002050 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272630002051 TSCPD domain; Region: TSCPD; cl14834 272630002052 cyclase homology domain; Region: CHD; cd07302 272630002053 nucleotidyl binding site; other site 272630002054 metal binding site [ion binding]; metal-binding site 272630002055 dimer interface [polypeptide binding]; other site 272630002056 cyclase homology domain; Region: CHD; cd07302 272630002057 cyclase homology domain; Region: CHD; cd07302 272630002058 nucleotidyl binding site; other site 272630002059 metal binding site [ion binding]; metal-binding site 272630002060 dimer interface [polypeptide binding]; other site 272630002061 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 272630002062 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272630002063 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272630002064 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630002065 putative active site [active] 272630002066 putative metal binding site [ion binding]; other site 272630002067 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272630002068 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 272630002069 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 272630002070 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 272630002071 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272630002072 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272630002073 DXD motif; other site 272630002074 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 272630002075 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002076 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 272630002077 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630002078 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630002079 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002080 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 272630002081 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 272630002082 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630002083 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 272630002084 dimerization interface [polypeptide binding]; other site 272630002085 putative Zn2+ binding site [ion binding]; other site 272630002086 putative DNA binding site [nucleotide binding]; other site 272630002087 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630002088 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 272630002089 Walker A/P-loop; other site 272630002090 ATP binding site [chemical binding]; other site 272630002091 Q-loop/lid; other site 272630002092 ABC transporter signature motif; other site 272630002093 Walker B; other site 272630002094 D-loop; other site 272630002095 H-loop/switch region; other site 272630002096 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 272630002097 dimer interface [polypeptide binding]; other site 272630002098 conserved gate region; other site 272630002099 putative PBP binding loops; other site 272630002100 ABC-ATPase subunit interface; other site 272630002101 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272630002102 NMT1-like family; Region: NMT1_2; cl15260 272630002103 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 272630002104 Rubredoxin; Region: Rubredoxin; pfam00301 272630002105 iron binding site [ion binding]; other site 272630002106 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 272630002107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630002108 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272630002109 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630002110 OsmC-like protein; Region: OsmC; cl00767 272630002111 Nif-specific regulatory protein; Region: nifA; TIGR01817 272630002112 GAF domain; Region: GAF; cl15785 272630002113 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 272630002114 Walker A motif; other site 272630002115 ATP binding site [chemical binding]; other site 272630002116 Walker B motif; other site 272630002117 arginine finger; other site 272630002118 Helix-turn-helix domains; Region: HTH; cl00088 272630002119 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272630002120 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 272630002121 conserved cys residue [active] 272630002122 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 272630002123 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 272630002124 conserved cys residue [active] 272630002125 Sodium:solute symporter family; Region: SSF; cl00456 272630002126 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272630002127 Protein of unknown function, DUF485; Region: DUF485; cl01231 272630002128 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272630002129 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 272630002130 putative active site [active] 272630002131 catalytic triad [active] 272630002132 putative dimer interface [polypeptide binding]; other site 272630002133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630002134 Helix-turn-helix domains; Region: HTH; cl00088 272630002135 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 272630002136 dimerization interface [polypeptide binding]; other site 272630002137 RNA polymerase sigma factor; Provisional; Region: PRK12547 272630002138 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630002139 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 272630002140 DNA binding residues [nucleotide binding] 272630002141 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 272630002142 non-specific DNA binding site [nucleotide binding]; other site 272630002143 salt bridge; other site 272630002144 sequence-specific DNA binding site [nucleotide binding]; other site 272630002145 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 272630002146 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 272630002147 Walker A/P-loop; other site 272630002148 ATP binding site [chemical binding]; other site 272630002149 Q-loop/lid; other site 272630002150 ABC transporter signature motif; other site 272630002151 Walker B; other site 272630002152 D-loop; other site 272630002153 H-loop/switch region; other site 272630002154 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272630002155 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002156 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002157 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 272630002158 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272630002159 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272630002160 DXD motif; other site 272630002161 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 272630002162 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 272630002163 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002164 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 272630002165 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630002166 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630002167 Walker A/P-loop; other site 272630002168 ATP binding site [chemical binding]; other site 272630002169 Q-loop/lid; other site 272630002170 ABC transporter signature motif; other site 272630002171 Walker B; other site 272630002172 D-loop; other site 272630002173 H-loop/switch region; other site 272630002174 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 272630002175 dimer interface [polypeptide binding]; other site 272630002176 conserved gate region; other site 272630002177 putative PBP binding loops; other site 272630002178 ABC-ATPase subunit interface; other site 272630002179 NMT1-like family; Region: NMT1_2; cl15260 272630002180 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 272630002181 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 272630002182 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 272630002183 active site 272630002184 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 272630002185 active site 272630002186 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 272630002187 dimer interface [polypeptide binding]; other site 272630002188 non-prolyl cis peptide bond; other site 272630002189 insertion regions; other site 272630002190 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630002191 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 272630002192 membrane-bound complex binding site; other site 272630002193 hinge residues; other site 272630002194 Cupin domain; Region: Cupin_2; cl09118 272630002195 serine acetyltransferase; Provisional; Region: cysE; PRK11132 272630002196 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 272630002197 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 272630002198 trimer interface [polypeptide binding]; other site 272630002199 active site 272630002200 substrate binding site [chemical binding]; other site 272630002201 CoA binding site [chemical binding]; other site 272630002202 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 272630002203 ligand binding site [chemical binding]; other site 272630002204 large tegument protein UL36; Provisional; Region: PHA03247 272630002205 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272630002206 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 272630002207 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630002208 catalytic residue [active] 272630002209 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272630002210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630002211 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630002212 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 272630002213 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 272630002214 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 protein; Region: CSP_CDS; cd04458 272630002215 DNA-binding site [nucleotide binding]; DNA binding site 272630002216 RNA-binding motif; other site 272630002217 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 272630002218 GAF domain; Region: GAF; cl15785 272630002219 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 272630002220 PAS domain; Region: PAS_9; pfam13426 272630002221 putative active site [active] 272630002222 heme pocket [chemical binding]; other site 272630002223 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 272630002224 PAS domain; Region: PAS_9; pfam13426 272630002225 putative active site [active] 272630002226 heme pocket [chemical binding]; other site 272630002227 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 272630002228 PAS fold; Region: PAS_3; pfam08447 272630002229 putative active site [active] 272630002230 heme pocket [chemical binding]; other site 272630002231 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 272630002232 PAS fold; Region: PAS_3; pfam08447 272630002233 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 272630002234 PAS fold; Region: PAS_3; pfam08447 272630002235 putative active site [active] 272630002236 heme pocket [chemical binding]; other site 272630002237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630002238 Histidine kinase; Region: HisKA_2; cl06527 272630002239 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 272630002240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630002241 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 272630002242 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 272630002243 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; cd00571 272630002244 dimer interface [polypeptide binding]; other site 272630002245 catalytic residues [active] 272630002246 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272630002247 UreF; Region: UreF; pfam01730 272630002248 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 272630002249 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 272630002250 alpha-gamma subunit interface [polypeptide binding]; other site 272630002251 beta-gamma subunit interface [polypeptide binding]; other site 272630002252 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 272630002253 alpha-beta subunit interface [polypeptide binding]; other site 272630002254 urease subunit alpha; Reviewed; Region: ureC; PRK13308 272630002255 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 272630002256 subunit interactions [polypeptide binding]; other site 272630002257 active site 272630002258 flap region; other site 272630002259 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 272630002260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002262 G4 box; other site 272630002263 G5 box; other site 272630002264 UreD urease accessory protein; Region: UreD; cl00530 272630002265 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630002266 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 272630002267 putative ligand binding site [chemical binding]; other site 272630002268 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 272630002269 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630002270 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 272630002271 N-terminal plug; other site 272630002272 ligand-binding site [chemical binding]; other site 272630002273 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 272630002274 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 272630002275 OsmC-like protein; Region: OsmC; cl00767 272630002276 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 272630002277 PAS domain; Region: PAS_9; pfam13426 272630002278 putative active site [active] 272630002279 heme pocket [chemical binding]; other site 272630002280 formyl-coenzyme A transferase; Provisional; Region: PRK05398 272630002281 CoA-transferase family III; Region: CoA_transf_3; pfam02515 272630002282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630002283 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272630002284 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 272630002285 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272630002286 PYR/PP interface [polypeptide binding]; other site 272630002287 dimer interface [polypeptide binding]; other site 272630002288 TPP binding site [chemical binding]; other site 272630002289 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272630002290 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 272630002291 TPP-binding site; other site 272630002292 dimer interface [polypeptide binding]; other site 272630002293 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 272630002294 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 272630002295 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272630002296 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 272630002297 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 272630002298 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272630002299 putative substrate translocation pore; other site 272630002300 FOG: CBS domain [General function prediction only]; Region: COG0517 272630002301 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 272630002302 Zeta toxin; Region: Zeta_toxin; pfam06414 272630002303 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272630002304 formyl-coenzyme A transferase; Provisional; Region: PRK05398 272630002305 CoA-transferase family III; Region: CoA_transf_3; pfam02515 272630002306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630002307 DNA-binding site [nucleotide binding]; DNA binding site 272630002308 FCD domain; Region: FCD; cl11656 272630002309 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272630002310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002311 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272630002312 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 272630002313 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630002314 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 272630002315 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 272630002316 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 272630002317 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272630002318 active site 272630002319 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 272630002320 Ligand Binding Site [chemical binding]; other site 272630002321 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 272630002322 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 272630002323 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 272630002324 potential protein location (conserved hypothetical protein) that overlaps protein (Hypothetical protein) 272630002325 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 272630002326 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 272630002327 active site 272630002328 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 272630002329 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630002330 putative ADP-binding pocket [chemical binding]; other site 272630002331 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 272630002332 regulatory protein interface [polypeptide binding]; other site 272630002333 active site 272630002334 regulatory phosphorylation site [posttranslational modification]; other site 272630002335 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 272630002336 active pocket/dimerization site; other site 272630002337 active site 272630002338 phosphorylation site [posttranslational modification] 272630002339 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 272630002340 active site 272630002341 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 272630002342 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 272630002343 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 272630002344 dimer interface [polypeptide binding]; other site 272630002345 phosphorylation site [posttranslational modification] 272630002346 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 272630002347 ATP binding site [chemical binding]; other site 272630002348 Mg2+ binding site [ion binding]; other site 272630002349 G-X-G motif; other site 272630002350 DNA-binding response regulator CreB; Provisional; Region: PRK11083 272630002351 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 272630002352 active site 272630002353 phosphorylation site [posttranslational modification] 272630002354 intermolecular recognition site; other site 272630002355 dimerization interface [polypeptide binding]; other site 272630002356 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 272630002357 DNA binding site [nucleotide binding] 272630002358 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 272630002359 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630002360 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 272630002361 GTP-binding protein LepA; Provisional; Region: PRK05433 272630002362 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 272630002363 G1 box; other site 272630002364 putative GEF interaction site [polypeptide binding]; other site 272630002365 GTP/Mg2+ binding site [chemical binding]; other site 272630002366 Switch I region; other site 272630002367 G2 box; other site 272630002368 G3 box; other site 272630002369 Switch II region; other site 272630002370 G4 box; other site 272630002371 G5 box; other site 272630002372 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 272630002373 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 272630002374 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272630002375 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630002376 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002377 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630002378 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630002379 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272630002380 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 272630002381 Transglycosylase; Region: Transgly; cl07896 272630002382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630002383 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272630002384 flagellin; Reviewed; Region: PRK12688 272630002385 flagellin; Reviewed; Region: PRK12688 272630002386 flagellin; Reviewed; Region: PRK12688 272630002387 Flagellar protein FlbT; Region: FlbT; cl11455 272630002388 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 272630002389 OpgC protein; Region: OpgC_C; cl00792 272630002390 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272630002391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630002392 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630002393 Zn2+ binding site [ion binding]; other site 272630002394 Mg2+ binding site [ion binding]; other site 272630002395 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272630002396 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272630002397 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 272630002398 active site 272630002399 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 272630002400 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630002401 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 272630002402 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630002403 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 272630002404 active site 272630002405 phosphorylation site [posttranslational modification] 272630002406 intermolecular recognition site; other site 272630002407 dimerization interface [polypeptide binding]; other site 272630002408 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 272630002409 Walker A motif; other site 272630002410 ATP binding site [chemical binding]; other site 272630002411 Walker B motif; other site 272630002412 arginine finger; other site 272630002413 Helix-turn-helix domains; Region: HTH; cl00088 272630002414 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272630002415 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 272630002416 dimer interface [polypeptide binding]; other site 272630002417 phosphorylation site [posttranslational modification] 272630002418 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 272630002419 ATP binding site [chemical binding]; other site 272630002420 Mg2+ binding site [ion binding]; other site 272630002421 G-X-G motif; other site 272630002422 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630002423 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630002424 Walker A/P-loop; other site 272630002425 ATP binding site [chemical binding]; other site 272630002426 Q-loop/lid; other site 272630002427 ABC transporter signature motif; other site 272630002428 Walker B; other site 272630002429 D-loop; other site 272630002430 H-loop/switch region; other site 272630002431 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272630002432 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 272630002433 dimer interface [polypeptide binding]; other site 272630002434 conserved gate region; other site 272630002435 putative PBP binding loops; other site 272630002436 ABC-ATPase subunit interface; other site 272630002437 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 272630002438 NMT1/THI5 like; Region: NMT1; pfam09084 272630002439 substrate binding pocket [chemical binding]; other site 272630002440 membrane-bound complex binding site; other site 272630002441 septum formation inhibitor; Reviewed; Region: minC; PRK05177 272630002442 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272630002443 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 272630002444 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272630002445 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 272630002446 G1 box; other site 272630002447 putative GEF interaction site [polypeptide binding]; other site 272630002448 GTP/Mg2+ binding site [chemical binding]; other site 272630002449 Switch I region; other site 272630002450 G2 box; other site 272630002451 G3 box; other site 272630002452 Switch II region; other site 272630002453 G4 box; other site 272630002454 G5 box; other site 272630002455 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 272630002456 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 272630002457 CHASE3 domain; Region: CHASE3; cl05000 272630002458 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 272630002459 dimerization interface [polypeptide binding]; other site 272630002460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630002461 dimer interface [polypeptide binding]; other site 272630002462 putative CheW interface [polypeptide binding]; other site 272630002463 septum formation inhibitor; Reviewed; Region: minC; PRK05177 272630002464 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272630002465 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 272630002466 Switch I; other site 272630002467 Switch II; other site 272630002468 Septum formation topological specificity factor MinE; Region: MinE; cl00538 272630002469 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272630002470 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 272630002471 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 272630002472 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 272630002473 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 272630002474 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272630002475 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630002476 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272630002477 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272630002478 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272630002479 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 272630002480 ATP binding site [chemical binding]; other site 272630002481 putative Mg++ binding site [ion binding]; other site 272630002482 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 272630002483 nucleotide binding region [chemical binding]; other site 272630002484 ATP-binding site [chemical binding]; other site 272630002485 TRCF domain; Region: TRCF; cl04088 272630002486 Urea transporter; Region: UT; cl01829 272630002487 UreD urease accessory protein; Region: UreD; cl00530 272630002488 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 272630002489 G1 box; other site 272630002490 GTP/Mg2+ binding site [chemical binding]; other site 272630002491 G2 box; other site 272630002492 Switch I region; other site 272630002493 Switch II region; other site 272630002494 G4 box; other site 272630002495 G5 box; other site 272630002496 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272630002497 UreF; Region: UreF; pfam01730 272630002498 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 272630002499 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; cd00571 272630002500 dimer interface [polypeptide binding]; other site 272630002501 catalytic residues [active] 272630002502 CrcB-like protein; Region: CRCB; cl09114 272630002503 CrcB-like protein; Region: CRCB; cl09114 272630002504 urease subunit alpha; Reviewed; Region: ureC; PRK13207 272630002505 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 272630002506 subunit interactions [polypeptide binding]; other site 272630002507 active site 272630002508 flap region; other site 272630002509 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; cl00533 272630002510 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 272630002511 alpha-gamma subunit interface [polypeptide binding]; other site 272630002512 beta-gamma subunit interface [polypeptide binding]; other site 272630002513 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 272630002514 N-terminal plug; other site 272630002515 ligand-binding site [chemical binding]; other site 272630002516 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 272630002517 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630002518 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 272630002519 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 272630002520 active site 272630002521 phosphorylation site [posttranslational modification] 272630002522 intermolecular recognition site; other site 272630002523 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272630002524 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630002525 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272630002526 catalytic residues [active] 272630002527 catalytic nucleophile [active] 272630002528 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630002529 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630002530 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630002531 Synaptic Site I dimer interface [polypeptide binding]; other site 272630002532 DNA binding site [nucleotide binding] 272630002533 Helix-turn-helix domains; Region: HTH; cl00088 272630002534 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 272630002535 KicB killing factor; Region: KicB; cl11468 272630002536 Protein of unknown function DUF72; Region: DUF72; cl00777 272630002537 Protein of unknown function (DUF429); Region: DUF429; cl12046 272630002538 Helix-turn-helix domains; Region: HTH; cl00088 272630002539 LysR family transcriptional regulator; Provisional; Region: PRK14997 272630002540 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630002541 putative effector binding pocket; other site 272630002542 dimerization interface [polypeptide binding]; other site 272630002543 classical (c) SDRs; Region: SDR_c; cd05233 272630002544 short chain dehydrogenase; Provisional; Region: PRK07041 272630002545 NAD(P) binding site [chemical binding]; other site 272630002546 active site 272630002547 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630002548 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 272630002549 dimerization interface [polypeptide binding]; other site 272630002550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630002551 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 272630002552 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 272630002553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 272630002554 NMT1-like family; Region: NMT1_2; cl15260 272630002555 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630002556 catalytic core [active] 272630002557 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630002558 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272630002559 classical (c) SDRs; Region: SDR_c; cd05233 272630002560 NAD(P) binding site [chemical binding]; other site 272630002561 active site 272630002562 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630002563 potential frameshift: common BLAST hit: gi|218529508|ref|YP_002420324.1| multi-sensor hybrid histidine kinase 272630002564 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; cl00075 272630002565 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 272630002566 Response regulator receiver domain; Region: Response_reg; pfam00072 272630002567 active site 272630002568 phosphorylation site [posttranslational modification] 272630002569 intermolecular recognition site; other site 272630002570 dimerization interface [polypeptide binding]; other site 272630002571 PAS domain S-box; Region: sensory_box; TIGR00229 272630002572 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 272630002573 putative active site [active] 272630002574 heme pocket [chemical binding]; other site 272630002575 GAF domain; Region: GAF_2; pfam13185 272630002576 GAF domain; Region: GAF; cl15785 272630002577 GAF domain; Region: GAF; cl15785 272630002578 PAS fold; Region: PAS_4; pfam08448 272630002579 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 272630002580 putative active site [active] 272630002581 heme pocket [chemical binding]; other site 272630002582 histidine kinase; Provisional; Region: PRK13557 272630002583 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 272630002584 dimer interface [polypeptide binding]; other site 272630002585 phosphorylation site [posttranslational modification] 272630002586 Cytochrome P450; Region: p450; pfam00067 272630002587 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272630002588 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 272630002589 PAS domain; Region: PAS_9; pfam13426 272630002590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630002591 metal binding site [ion binding]; metal-binding site 272630002592 active site 272630002593 I-site; other site 272630002594 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 272630002595 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 272630002596 ApbE family; Region: ApbE; cl00643 272630002597 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 272630002598 FMN-binding domain; Region: FMN_bind; cl01081 272630002599 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 272630002600 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272630002601 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272630002602 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272630002603 structural tetrad; other site 272630002604 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630002605 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 272630002606 ligand binding site [chemical binding]; other site 272630002607 Cytochrome c; Region: Cytochrom_C; cl11414 272630002608 Cytochrome c; Region: Cytochrom_C; cl11414 272630002609 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272630002610 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 272630002611 substrate binding pocket [chemical binding]; other site 272630002612 membrane-bound complex binding site; other site 272630002613 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272630002614 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 272630002615 dimer interface [polypeptide binding]; other site 272630002616 Trp docking motif [polypeptide binding]; other site 272630002617 active site 272630002618 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 272630002619 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272630002620 putative substrate translocation pore; other site 272630002621 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 272630002622 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630002623 Peptidase family M48; Region: Peptidase_M48; cl12018 272630002624 Cupin domain; Region: Cupin_2; cl09118 272630002625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630002626 classical (c) SDRs; Region: SDR_c; cd05233 272630002627 NAD(P) binding site [chemical binding]; other site 272630002628 active site 272630002629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630002630 Helix-turn-helix domains; Region: HTH; cl00088 272630002631 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 272630002632 dimerization interface [polypeptide binding]; other site 272630002633 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 272630002634 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 272630002635 Ligand Binding Site [chemical binding]; other site 272630002636 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 272630002637 Ligand Binding Site [chemical binding]; other site 272630002638 Cytochrome c; Region: Cytochrom_C; cl11414 272630002639 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 272630002640 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630002641 ligand binding site [chemical binding]; other site 272630002642 flexible hinge region; other site 272630002643 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 272630002644 putative switch regulator; other site 272630002645 non-specific DNA interactions [nucleotide binding]; other site 272630002646 DNA binding site [nucleotide binding] 272630002647 sequence specific DNA binding site [nucleotide binding]; other site 272630002648 putative cAMP binding site [chemical binding]; other site 272630002649 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 272630002650 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 272630002651 Walker A/P-loop; other site 272630002652 ATP binding site [chemical binding]; other site 272630002653 ABC transporter; Region: ABC_tran; pfam00005 272630002654 Q-loop/lid; other site 272630002655 ABC transporter signature motif; other site 272630002656 Walker B; other site 272630002657 D-loop; other site 272630002658 H-loop/switch region; other site 272630002659 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630002660 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272630002661 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002662 Walker A/P-loop; other site 272630002663 ATP binding site [chemical binding]; other site 272630002664 Q-loop/lid; other site 272630002665 ABC transporter signature motif; other site 272630002666 Walker B; other site 272630002667 D-loop; other site 272630002668 H-loop/switch region; other site 272630002669 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272630002670 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 272630002671 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272630002672 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272630002673 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272630002674 Helix-turn-helix domains; Region: HTH; cl00088 272630002675 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630002676 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272630002677 Amidase; Region: Amidase; cl11426 272630002678 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 272630002679 Response regulator receiver domain; Region: Response_reg; pfam00072 272630002680 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 272630002681 active site 272630002682 phosphorylation site [posttranslational modification] 272630002683 intermolecular recognition site; other site 272630002684 dimerization interface [polypeptide binding]; other site 272630002685 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 272630002686 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 272630002687 DXD motif; other site 272630002688 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 272630002689 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 272630002690 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272630002691 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 272630002692 putative NAD(P) binding site [chemical binding]; other site 272630002693 active site 272630002694 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272630002695 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 272630002696 MFS_1 like family; Region: MFS_1_like; pfam12832 272630002697 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 272630002698 primosome assembly protein PriA; Validated; Region: PRK05580 272630002699 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 272630002700 ATP binding site [chemical binding]; other site 272630002701 putative Mg++ binding site [ion binding]; other site 272630002702 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 272630002703 short chain dehydrogenase; Provisional; Region: PRK07109 272630002704 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 272630002705 putative NAD(P) binding site [chemical binding]; other site 272630002706 active site 272630002707 Isochorismatase family; Region: Isochorismatase; pfam00857 272630002708 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 272630002709 catalytic triad [active] 272630002710 conserved cis-peptide bond; other site 272630002711 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272630002712 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630002713 NAD binding site [chemical binding]; other site 272630002714 catalytic Zn binding site [ion binding]; other site 272630002715 structural Zn binding site [ion binding]; other site 272630002716 Predicted membrane protein [Function unknown]; Region: COG4129 272630002717 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272630002718 short chain dehydrogenase; Provisional; Region: PRK06701 272630002719 NAD binding site [chemical binding]; other site 272630002720 metal binding site [ion binding]; metal-binding site 272630002721 active site 272630002722 short chain dehydrogenase; Provisional; Region: PRK06139 272630002723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630002724 NAD(P) binding site [chemical binding]; other site 272630002725 active site 272630002726 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272630002727 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630002728 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272630002729 active site 272630002730 ATP binding site [chemical binding]; other site 272630002731 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 272630002732 putative Zn2+ binding site [ion binding]; other site 272630002733 putative DNA binding site [nucleotide binding]; other site 272630002734 sensor protein QseC; Provisional; Region: PRK10337 272630002735 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 272630002736 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 272630002737 ATP binding site [chemical binding]; other site 272630002738 Mg2+ binding site [ion binding]; other site 272630002739 G-X-G motif; other site 272630002740 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 272630002741 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 272630002742 active site 272630002743 phosphorylation site [posttranslational modification] 272630002744 intermolecular recognition site; other site 272630002745 dimerization interface [polypeptide binding]; other site 272630002746 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 272630002747 DNA binding site [nucleotide binding] 272630002748 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 272630002749 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 272630002750 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272630002751 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630002752 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272630002753 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630002754 catalytic residues [active] 272630002755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630002756 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630002757 DsrE/DsrF-like family; Region: DrsE; cl00672 272630002758 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 272630002759 Predicted transporter component [General function prediction only]; Region: COG2391 272630002760 Sulphur transport; Region: Sulf_transp; cl01018 272630002761 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272630002762 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630002763 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 272630002764 active site residue [active] 272630002765 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272630002766 arsenical pump membrane protein; Provisional; Region: PRK15445 272630002767 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 272630002768 transmembrane helices; other site 272630002769 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 272630002770 ArsC family; Region: ArsC; pfam03960 272630002771 catalytic residues [active] 272630002772 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272630002773 active site 272630002774 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 272630002775 dimerization interface [polypeptide binding]; other site 272630002776 putative DNA binding site [nucleotide binding]; other site 272630002777 putative Zn2+ binding site [ion binding]; other site 272630002778 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630002779 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 272630002780 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 272630002781 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 272630002782 Cl- selectivity filter; other site 272630002783 Cl- binding residues [ion binding]; other site 272630002784 pore gating glutamate residue; other site 272630002785 dimer interface [polypeptide binding]; other site 272630002786 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630002787 catalytic core [active] 272630002788 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630002789 catalytic core [active] 272630002790 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 272630002791 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 272630002792 gating phenylalanine in ion channel; other site 272630002793 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 272630002794 Moco binding site; other site 272630002795 metal coordination site [ion binding]; other site 272630002796 Cytochrome c; Region: Cytochrom_C; cl11414 272630002797 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272630002798 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272630002799 structural tetrad; other site 272630002800 sulfite oxidase; Provisional; Region: PLN00177 272630002801 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 272630002802 Moco binding site; other site 272630002803 metal coordination site [ion binding]; other site 272630002804 Domain of unknown function (DUF202); Region: DUF202; cl09954 272630002805 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 272630002806 Helix-turn-helix domains; Region: HTH; cl00088 272630002807 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 272630002808 putative dimerization interface [polypeptide binding]; other site 272630002809 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 272630002810 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 272630002811 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272630002812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630002813 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 272630002814 DNA binding residues [nucleotide binding] 272630002815 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 272630002816 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 272630002817 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630002818 Uncharacterized conserved protein [Function unknown]; Region: COG3391 272630002819 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630002820 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630002821 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 272630002822 high affinity sulphate transporter 1; Region: sulP; TIGR00815 272630002823 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630002824 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630002825 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 272630002826 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630002827 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; cl00047 272630002828 Helix-turn-helix domains; Region: HTH; cl00088 272630002829 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272630002830 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630002831 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630002832 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630002833 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630002834 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 272630002835 catalytic residues [active] 272630002836 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630002837 active site 272630002838 metal binding site [ion binding]; metal-binding site 272630002839 HIRAN domain; Region: HIRAN; cl07418 272630002840 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630002841 putative active site [active] 272630002842 putative metal binding site [ion binding]; other site 272630002843 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 272630002844 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 272630002845 active site 272630002846 DNA binding site [nucleotide binding] 272630002847 Int/Topo IB signature motif; other site 272630002848 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 272630002849 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 272630002850 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630002851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630002852 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 272630002853 Putative zinc-finger; Region: zf-HC2; cl15806 272630002854 RNA polymerase sigma factor; Provisional; Region: PRK12511 272630002855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630002856 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630002857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272630002858 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630002859 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 272630002860 Protein of unknown function (DUF461); Region: DUF461; cl01071 272630002861 Protein of unknown function (DUF461); Region: DUF461; cl01071 272630002862 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 272630002863 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 272630002864 Cu(I) binding site [ion binding]; other site 272630002865 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630002866 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 272630002867 N-terminal plug; other site 272630002868 ligand-binding site [chemical binding]; other site 272630002869 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 272630002870 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630002871 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630002872 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272630002873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630002874 DNA-binding site [nucleotide binding]; DNA binding site 272630002875 FCD domain; Region: FCD; cl11656 272630002876 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272630002877 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272630002878 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272630002879 DctM-like transporters; Region: DctM; pfam06808 272630002880 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272630002881 similar to hypothetical protein; Evidence 6 : Doubtful CDS 272630002882 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272630002883 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 272630002884 dimer interface [polypeptide binding]; other site 272630002885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630002886 catalytic residue [active] 272630002887 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630002888 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630002889 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 272630002890 MG2 domain; Region: A2M_N; pfam01835 272630002891 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 272630002892 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 272630002893 surface patch; other site 272630002894 thioester region; other site 272630002895 specificity defining residues; other site 272630002896 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 272630002897 Transglycosylase; Region: Transgly; cl07896 272630002898 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630002899 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 272630002900 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272630002901 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 272630002902 active site 272630002903 catalytic site [active] 272630002904 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 272630002905 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 272630002906 vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to...; Region: vWA_interalpha_trypsin_inhibitor; cd01461 272630002907 metal ion-dependent adhesion site (MIDAS); other site 272630002908 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 272630002909 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630002910 catalytic core [active] 272630002911 High-affinity nickel-transport protein; Region: NicO; cl00964 272630002912 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 272630002913 Cytochrome C biogenesis protein; Region: CcmH; cl01179 272630002914 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272630002915 CcmE; Region: CcmE; cl00994 272630002916 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 272630002917 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 272630002918 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 272630002919 TPR motif; other site 272630002920 binding surface 272630002921 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630002922 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 272630002923 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 272630002924 dimer interface [polypeptide binding]; other site 272630002925 phosphorylation site [posttranslational modification] 272630002926 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 272630002927 ATP binding site [chemical binding]; other site 272630002928 Mg2+ binding site [ion binding]; other site 272630002929 G-X-G motif; other site 272630002930 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 272630002931 putative active site [active] 272630002932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630002933 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 272630002934 active site 272630002935 phosphorylation site [posttranslational modification] 272630002936 intermolecular recognition site; other site 272630002937 dimerization interface [polypeptide binding]; other site 272630002938 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 272630002939 DNA binding site [nucleotide binding] 272630002940 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 272630002941 catalytic residues [active] 272630002942 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 272630002943 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 272630002944 Putative phage tail protein; Region: Phage-tail_3; pfam13550 272630002945 NlpC/P60 family; Region: NLPC_P60; cl11438 272630002946 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 272630002947 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 272630002948 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 272630002949 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 272630002950 Phage-related minor tail protein [Function unknown]; Region: COG5281 272630002951 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 272630002952 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 272630002953 Phage major tail protein 2; Region: Phage_tail_2; cl11463 272630002954 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 272630002955 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 272630002956 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 272630002957 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630002958 cleavage site 272630002959 active site 272630002960 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630002961 active site 272630002962 substrate binding sites [chemical binding]; other site 272630002963 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 272630002964 Phage capsid family; Region: Phage_capsid; pfam05065 272630002965 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 272630002966 Phage-related protein [Function unknown]; Region: COG4695; cl01923 272630002967 Phage portal protein; Region: Phage_portal; pfam04860 272630002968 Uncharacterized conserved protein [Function unknown]; Region: COG5323 272630002969 similar to hypothetical protein; Evidence 6 : Doubtful CDS 272630002970 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630002971 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272630002972 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630002973 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272630002974 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 272630002975 Precorrin-8X methylmutase; Region: CbiC; pfam02570 272630002976 precorrin-3B synthase; Region: CobG; TIGR02435 272630002977 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272630002978 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 272630002979 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272630002980 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272630002981 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 272630002982 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 272630002983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002984 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272630002985 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630002986 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 272630002987 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 272630002988 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 272630002989 Helix-turn-helix domains; Region: HTH; cl00088 272630002990 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 272630002991 homotrimer interface [polypeptide binding]; other site 272630002992 Walker A motif; other site 272630002993 GTP binding site [chemical binding]; other site 272630002994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630002995 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 272630002996 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 272630002997 homodimer interface [polypeptide binding]; other site 272630002998 Walker A motif; other site 272630002999 ATP binding site [chemical binding]; other site 272630003000 hydroxycobalamin binding site [chemical binding]; other site 272630003001 Walker B motif; other site 272630003002 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272630003003 Class II fumarases; Region: Fumarase_classII; cd01362 272630003004 active site 272630003005 tetramer interface [polypeptide binding]; other site 272630003006 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 272630003007 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630003008 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 272630003009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630003010 dimer interface [polypeptide binding]; other site 272630003011 putative CheW interface [polypeptide binding]; other site 272630003012 EamA-like transporter family; Region: EamA; cl01037 272630003013 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272630003014 EamA-like transporter family; Region: EamA; cl01037 272630003015 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272630003016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630003017 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272630003018 Aerotolerance regulator N-terminal; Region: BatA; cl06567 272630003019 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 272630003020 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 272630003021 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 272630003022 MoxR-like ATPases [General function prediction only]; Region: COG0714 272630003023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630003024 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272630003025 CoenzymeA binding site [chemical binding]; other site 272630003026 subunit interaction site [polypeptide binding]; other site 272630003027 PHB binding site; other site 272630003028 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 272630003029 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 272630003030 putative active site [active] 272630003031 putative CoA binding site [chemical binding]; other site 272630003032 nudix motif; other site 272630003033 metal binding site [ion binding]; metal-binding site 272630003034 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272630003035 active site 272630003036 NTP binding site [chemical binding]; other site 272630003037 metal binding triad [ion binding]; metal-binding site 272630003038 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272630003039 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14736 272630003040 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 272630003041 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272630003042 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272630003043 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 272630003044 alpha subunit interaction interface [polypeptide binding]; other site 272630003045 Walker A motif; other site 272630003046 ATP binding site [chemical binding]; other site 272630003047 Walker B motif; other site 272630003048 inhibitor binding site; inhibition site 272630003049 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272630003050 ATP synthase; Region: ATP-synt; cl00365 272630003051 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 272630003052 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272630003053 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272630003054 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 272630003055 beta subunit interaction interface [polypeptide binding]; other site 272630003056 Walker A motif; other site 272630003057 ATP binding site [chemical binding]; other site 272630003058 Walker B motif; other site 272630003059 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272630003060 Plant ATP synthase F0; Region: YMF19; cl07975 272630003061 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272630003062 ferrochelatase; Reviewed; Region: hemH; PRK00035 272630003063 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 272630003064 C-terminal domain interface [polypeptide binding]; other site 272630003065 active site 272630003066 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 272630003067 active site 272630003068 N-terminal domain interface [polypeptide binding]; other site 272630003069 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272630003070 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 272630003071 S-adenosylmethionine binding site [chemical binding]; other site 272630003072 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272630003073 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630003074 active site 272630003075 metal binding site [ion binding]; metal-binding site 272630003076 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272630003077 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 272630003078 ligand binding site [chemical binding]; other site 272630003079 active site 272630003080 UGI interface [polypeptide binding]; other site 272630003081 catalytic site [active] 272630003082 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 272630003083 active site residue [active] 272630003084 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 272630003085 Chromate transporter; Region: Chromate_transp; pfam02417 272630003086 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 272630003087 Chromate transporter; Region: Chromate_transp; pfam02417 272630003088 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 272630003089 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272630003090 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272630003091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630003092 ATP binding site [chemical binding]; other site 272630003093 putative Mg++ binding site [ion binding]; other site 272630003094 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272630003095 SEC-C motif; Region: SEC-C; pfam02810 272630003096 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630003097 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630003098 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 272630003099 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272630003100 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 272630003101 nudix motif; other site 272630003102 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630003103 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 272630003104 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 272630003105 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 272630003106 active site 272630003107 catalytic site [active] 272630003108 substrate binding site [chemical binding]; other site 272630003109 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272630003110 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 272630003111 CoA-binding site [chemical binding]; other site 272630003112 ATP-binding [chemical binding]; other site 272630003113 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 272630003114 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272630003115 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272630003116 shikimate binding site; other site 272630003117 NAD(P) binding site [chemical binding]; other site 272630003118 Cation efflux family; Region: Cation_efflux; cl00316 272630003119 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 272630003120 putative active site [active] 272630003121 Protein of unknown function (DUF563); Region: DUF563; cl15705 272630003122 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 272630003123 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 272630003124 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 272630003125 nudix motif; other site 272630003126 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 272630003127 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 272630003128 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 272630003129 ATP phosphoribosyltransferase; Region: HisG; cl15266 272630003130 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 272630003131 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630003132 active site 272630003133 dimer interface [polypeptide binding]; other site 272630003134 motif 2; other site 272630003135 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630003136 active site 272630003137 motif 3; other site 272630003138 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 272630003139 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630003140 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630003141 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 272630003142 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 272630003143 putative substrate translocation pore; other site 272630003144 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272630003145 putative acyl-acceptor binding pocket; other site 272630003146 AMP-binding enzyme; Region: AMP-binding; cl15778 272630003147 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 272630003148 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 272630003149 non-specific DNA binding site [nucleotide binding]; other site 272630003150 salt bridge; other site 272630003151 sequence-specific DNA binding site [nucleotide binding]; other site 272630003152 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 272630003153 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630003154 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 272630003155 diiron binding motif [ion binding]; other site 272630003156 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272630003157 CCC1-related protein family; Region: CCC1_like_1; cd02437 272630003158 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 272630003159 trimer interface [polypeptide binding]; other site 272630003160 putative metal binding site [ion binding]; other site 272630003161 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 272630003162 trimer interface [polypeptide binding]; other site 272630003163 putative metal binding site [ion binding]; other site 272630003164 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 272630003165 MoaE homodimer interface [polypeptide binding]; other site 272630003166 MoaD interaction [polypeptide binding]; other site 272630003167 active site residues [active] 272630003168 Domain of unknown function DUF20; Region: UPF0118; pfam01594 272630003169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003170 Predicted dehydrogenase [General function prediction only]; Region: COG0579 272630003171 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 272630003172 VWA YIEM type: 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...; Region: VWA_YIEM_type; cd01462 272630003173 metal ion-dependent adhesion site (MIDAS); other site 272630003174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630003175 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12854 272630003176 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272630003177 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272630003178 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 272630003179 putative uracil binding site [chemical binding]; other site 272630003180 putative active site [active] 272630003181 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 272630003182 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 contains two...; Region: OMP_decarboxylase_like; cd04725 272630003183 active site 272630003184 dimer interface [polypeptide binding]; other site 272630003185 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 272630003186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630003187 Helix-turn-helix domains; Region: HTH; cl00088 272630003188 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272630003189 trimer interface [polypeptide binding]; other site 272630003190 active site 272630003191 Protein of unknown function (DUF429); Region: DUF429; cl12046 272630003192 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 272630003193 nudix motif; other site 272630003194 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 272630003195 active site clefts [active] 272630003196 zinc binding site [ion binding]; other site 272630003197 dimer interface [polypeptide binding]; other site 272630003198 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 cysteine...; Region: CysQ; cd01638 272630003199 active site 272630003200 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 272630003201 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 272630003202 putative binding surface; other site 272630003203 active site 272630003204 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272630003205 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 272630003206 ATP binding site [chemical binding]; other site 272630003207 Mg2+ binding site [ion binding]; other site 272630003208 G-X-G motif; other site 272630003209 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 272630003210 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272630003211 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 272630003212 active site 272630003213 phosphorylation site [posttranslational modification] 272630003214 intermolecular recognition site; other site 272630003215 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272630003216 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 272630003217 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003218 active site 272630003219 phosphorylation site [posttranslational modification] 272630003220 intermolecular recognition site; other site 272630003221 dimerization interface [polypeptide binding]; other site 272630003222 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272630003223 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 272630003224 active site 272630003225 phosphorylation site [posttranslational modification] 272630003226 intermolecular recognition site; other site 272630003227 dimerization interface [polypeptide binding]; other site 272630003228 CheB methylesterase; Region: CheB_methylest; pfam01339 272630003229 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272630003230 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 272630003231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003232 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272630003233 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 272630003234 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 272630003235 UV-endonuclease UvdE; Region: UvdE; cl10036 272630003236 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 272630003237 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 272630003238 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 272630003239 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 272630003240 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 272630003241 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 272630003242 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 272630003243 Ligand binding site [chemical binding]; other site 272630003244 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272630003245 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 272630003246 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 272630003247 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272630003248 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 272630003249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003250 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272630003251 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 272630003252 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 272630003253 NAD(P) binding site [chemical binding]; other site 272630003254 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630003255 active site 272630003256 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 272630003257 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 272630003258 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 272630003259 active site 272630003260 catalytic site [active] 272630003261 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 272630003262 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 272630003263 active site 272630003264 homotetramer interface [polypeptide binding]; other site 272630003265 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 272630003266 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 272630003267 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 272630003268 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 272630003269 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272630003270 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 ATP-dependent...; Region: HisRS-like_core; cd00773 272630003271 dimer interface [polypeptide binding]; other site 272630003272 motif 1; other site 272630003273 active site 272630003274 motif 2; other site 272630003275 motif 3; other site 272630003276 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 272630003277 anticodon binding site; other site 272630003278 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 272630003279 dimer interface [polypeptide binding]; other site 272630003280 putative tRNA-binding site [nucleotide binding]; other site 272630003281 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 272630003282 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272630003283 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 272630003284 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 272630003285 SecA binding site; other site 272630003286 Preprotein binding site; other site 272630003287 Tim44-like domain; Region: Tim44; cl09208 272630003288 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 272630003289 MltA specific insert domain; Region: MltA; cl08398 272630003290 3D domain; Region: 3D; cl01439 272630003291 Smr domain; Region: Smr; cl02619 272630003292 transcription termination factor Rho; Provisional; Region: rho; PRK09376 272630003293 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 272630003294 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 272630003295 RNA binding site [nucleotide binding]; other site 272630003296 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 272630003297 multimer interface [polypeptide binding]; other site 272630003298 Walker A motif; other site 272630003299 ATP binding site [chemical binding]; other site 272630003300 Walker B motif; other site 272630003301 pyruvate dehydrogenase; Provisional; Region: PRK09124 272630003302 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 272630003303 PYR/PP interface [polypeptide binding]; other site 272630003304 dimer interface [polypeptide binding]; other site 272630003305 tetramer interface [polypeptide binding]; other site 272630003306 TPP binding site [chemical binding]; other site 272630003307 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272630003308 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 272630003309 TPP-binding site [chemical binding]; other site 272630003310 Integral membrane protein TerC family; Region: TerC; cl10468 272630003311 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272630003312 putative lipid kinase; Reviewed; Region: PRK13057 272630003313 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 272630003314 active site 272630003315 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630003316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630003317 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 272630003318 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 272630003319 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 272630003320 trimer interface [polypeptide binding]; other site 272630003321 active site 272630003322 substrate binding site [chemical binding]; other site 272630003323 CoA binding site [chemical binding]; other site 272630003324 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 272630003325 ligand binding site [chemical binding]; other site 272630003326 flexible hinge region; other site 272630003327 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630003328 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 272630003329 active site 272630003330 phosphorylation site [posttranslational modification] 272630003331 intermolecular recognition site; other site 272630003332 dimerization interface [polypeptide binding]; other site 272630003333 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 272630003334 DNA binding site [nucleotide binding] 272630003335 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630003336 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272630003337 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272630003338 catalytic residue [active] 272630003339 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272630003340 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272630003341 HIGH motif; other site 272630003342 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272630003343 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630003344 active site 272630003345 KMSKS motif; other site 272630003346 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272630003347 tRNA binding surface [nucleotide binding]; other site 272630003348 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272630003349 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272630003350 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272630003351 G1 box; other site 272630003352 GTP/Mg2+ binding site [chemical binding]; other site 272630003353 Switch I region; other site 272630003354 G2 box; other site 272630003355 Switch II region; other site 272630003356 G3 box; other site 272630003357 G4 box; other site 272630003358 G5 box; other site 272630003359 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272630003360 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 272630003361 PAS fold; Region: PAS_3; pfam08447 272630003362 putative active site [active] 272630003363 heme pocket [chemical binding]; other site 272630003364 PAS fold; Region: PAS_3; pfam08447 272630003365 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630003366 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272630003367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003369 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 272630003370 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; cl15754 272630003371 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272630003372 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 272630003373 P-loop; other site 272630003374 Magnesium ion binding site [ion binding]; other site 272630003375 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 272630003376 Magnesium ion binding site [ion binding]; other site 272630003377 ParB-like partition proteins; Region: parB_part; TIGR00180 272630003378 ParB-like nuclease domain; Region: ParBc; cl02129 272630003379 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 272630003380 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 272630003381 Lipopolysaccharide-assembly; Region: LptE; cl01125 272630003382 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 272630003383 Helix-turn-helix domains; Region: HTH; cl00088 272630003384 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 272630003385 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 272630003386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003387 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 272630003388 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 272630003389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630003390 homodimer interface [polypeptide binding]; other site 272630003391 catalytic residue [active] 272630003392 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 272630003393 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 272630003394 N-terminal plug; other site 272630003395 ligand-binding site [chemical binding]; other site 272630003396 K+ potassium transporter; Region: K_trans; cl15781 272630003397 potassium uptake protein; Region: kup; TIGR00794 272630003398 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272630003399 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272630003400 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272630003401 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 272630003402 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 272630003403 active site 272630003404 nucleophile elbow; other site 272630003405 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 272630003406 putative DNA binding site [nucleotide binding]; other site 272630003407 putative Zn2+ binding site [ion binding]; other site 272630003408 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272630003409 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 272630003410 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 272630003411 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 272630003412 FAD binding site [chemical binding]; other site 272630003413 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 272630003414 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272630003415 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 272630003416 substrate binding pocket [chemical binding]; other site 272630003417 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 272630003418 B12 binding site [chemical binding]; other site 272630003419 cobalt ligand [ion binding]; other site 272630003420 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272630003421 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 272630003422 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630003423 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272630003424 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 272630003425 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 272630003426 putative active site [active] 272630003427 putative metal binding site [ion binding]; other site 272630003428 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 272630003429 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 272630003430 Haemolysin-III related; Region: HlyIII; cl03831 272630003431 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 272630003432 ThiC-associated domain; Region: ThiC-associated; pfam13667 272630003433 ThiC family; Region: ThiC; cl08031 272630003434 FlaG protein; Region: FlaG; cl00591 272630003435 Flagellar protein FlaF; Region: FlaF; cl11454 272630003436 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630003437 putative active site [active] 272630003438 putative metal binding site [ion binding]; other site 272630003439 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272630003440 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272630003441 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 272630003442 putative dimer interface [polypeptide binding]; other site 272630003443 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 272630003444 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630003445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630003446 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 272630003447 putative ADP-binding pocket [chemical binding]; other site 272630003448 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272630003449 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272630003450 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272630003451 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 272630003452 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 272630003453 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 272630003454 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630003455 putative ADP-binding pocket [chemical binding]; other site 272630003456 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 272630003457 ribosomal protein L20; Region: rpl20; CHL00068 272630003458 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272630003459 23S rRNA binding site [nucleotide binding]; other site 272630003460 L21 binding site [polypeptide binding]; other site 272630003461 L13 binding site [polypeptide binding]; other site 272630003462 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272630003463 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272630003464 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 272630003465 dimer interface [polypeptide binding]; other site 272630003466 motif 1; other site 272630003467 active site 272630003468 motif 2; other site 272630003469 motif 3; other site 272630003470 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272630003471 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 272630003472 putative tRNA-binding site [nucleotide binding]; other site 272630003473 B3/4 domain; Region: B3_4; cl11458 272630003474 tRNA synthetase B5 domain; Region: B5; cl08394 272630003475 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 272630003476 dimer interface [polypeptide binding]; other site 272630003477 motif 1; other site 272630003478 motif 3; other site 272630003479 motif 2; other site 272630003480 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 272630003481 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 272630003482 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 272630003483 SEC-C motif; Region: SEC-C; pfam02810 272630003484 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 272630003485 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 272630003486 ATP binding site [chemical binding]; other site 272630003487 substrate interface [chemical binding]; other site 272630003488 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 272630003489 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 272630003490 metal binding site [ion binding]; metal-binding site 272630003491 dimer interface [polypeptide binding]; other site 272630003492 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272630003493 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 272630003494 dimerization interface 3.5A [polypeptide binding]; other site 272630003495 active site 272630003496 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272630003497 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272630003498 putative active site [active] 272630003499 substrate binding site [chemical binding]; other site 272630003500 putative cosubstrate binding site; other site 272630003501 catalytic site [active] 272630003502 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272630003503 substrate binding site [chemical binding]; other site 272630003504 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 272630003505 active site 272630003506 catalytic residues [active] 272630003507 metal binding site [ion binding]; metal-binding site 272630003508 recombination protein RecR; Reviewed; Region: recR; PRK00076 272630003509 RecR protein; Region: RecR; pfam02132 272630003510 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 272630003511 putative active site [active] 272630003512 putative metal-binding site [ion binding]; other site 272630003513 tetramer interface [polypeptide binding]; other site 272630003514 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 272630003515 active site 272630003516 substrate-binding site [chemical binding]; other site 272630003517 metal-binding site [ion binding] 272630003518 ATP binding site [chemical binding]; other site 272630003519 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 272630003520 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 272630003521 FeS/SAM binding site; other site 272630003522 shikimate kinase; Provisional; Region: PRK13946 272630003523 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 272630003524 ADP binding site [chemical binding]; other site 272630003525 magnesium binding site [ion binding]; other site 272630003526 putative shikimate binding site; other site 272630003527 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272630003528 active site 272630003529 dimer interface [polypeptide binding]; other site 272630003530 metal binding site [ion binding]; metal-binding site 272630003531 Helix-turn-helix domains; Region: HTH; cl00088 272630003532 malate dehydrogenase; Reviewed; Region: PRK06223 272630003533 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 272630003534 NAD(P) binding site [chemical binding]; other site 272630003535 dimer interface [polypeptide binding]; other site 272630003536 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272630003537 substrate binding site [chemical binding]; other site 272630003538 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 272630003539 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630003540 CoA-ligase; Region: Ligase_CoA; cl02894 272630003541 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272630003542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003543 CoA-ligase; Region: Ligase_CoA; cl02894 272630003544 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 272630003545 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 272630003546 TPP-binding site [chemical binding]; other site 272630003547 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 272630003548 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 272630003549 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 272630003550 E3 interaction surface; other site 272630003551 lipoyl attachment site [posttranslational modification]; other site 272630003552 e3 binding domain; Region: E3_binding; pfam02817 272630003553 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272630003554 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 272630003555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630003557 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630003558 histidine kinase; Provisional; Region: PRK13557 272630003559 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 272630003560 putative active site [active] 272630003561 heme pocket [chemical binding]; other site 272630003562 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 272630003563 dimer interface [polypeptide binding]; other site 272630003564 phosphorylation site [posttranslational modification] 272630003565 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 272630003566 ATP binding site [chemical binding]; other site 272630003567 Mg2+ binding site [ion binding]; other site 272630003568 G-X-G motif; other site 272630003569 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 272630003570 active site 272630003571 phosphorylation site [posttranslational modification] 272630003572 intermolecular recognition site; other site 272630003573 dimerization interface [polypeptide binding]; other site 272630003574 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272630003575 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 272630003576 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; cl00159 272630003577 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272630003578 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 272630003579 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 272630003580 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003581 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272630003582 conserved cys residue [active] 272630003583 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272630003584 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 272630003585 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 272630003586 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 272630003587 active site 272630003588 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 272630003589 domain_subunit interface; other site 272630003590 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 272630003591 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 272630003592 active site 272630003593 FMN binding site [chemical binding]; other site 272630003594 substrate binding site [chemical binding]; other site 272630003595 3Fe-4S cluster binding site [ion binding]; other site 272630003596 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 272630003597 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272630003598 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630003599 putative active site [active] 272630003600 putative metal binding site [ion binding]; other site 272630003601 HIRAN domain; Region: HIRAN; cl07418 272630003602 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 272630003603 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272630003604 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630003605 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630003606 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 272630003607 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 272630003608 ATP binding site [chemical binding]; other site 272630003609 putative Mg++ binding site [ion binding]; other site 272630003610 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 272630003611 nucleotide binding region [chemical binding]; other site 272630003612 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 272630003613 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 272630003614 tellurite resistance protein terB; Region: terB; cd07176 272630003615 putative metal binding site [ion binding]; other site 272630003616 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272630003617 dinuclear metal binding motif [ion binding]; other site 272630003618 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 272630003619 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 272630003620 PAS domain S-box; Region: sensory_box; TIGR00229 272630003621 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630003622 metal binding site [ion binding]; metal-binding site 272630003623 active site 272630003624 I-site; other site 272630003625 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 272630003626 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630003627 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272630003628 dimer interface [polypeptide binding]; other site 272630003629 putative CheW interface [polypeptide binding]; other site 272630003630 PilZ domain; Region: PilZ; cl01260 272630003631 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 272630003632 active site 272630003633 nucleophile elbow; other site 272630003634 Patatin phospholipase; Region: DUF3734; pfam12536 272630003635 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272630003636 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630003637 NAD binding site [chemical binding]; other site 272630003638 catalytic Zn binding site [ion binding]; other site 272630003639 structural Zn binding site [ion binding]; other site 272630003640 short chain dehydrogenase; Provisional; Region: PRK07109 272630003641 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 272630003642 putative NAD(P) binding site [chemical binding]; other site 272630003643 active site 272630003644 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272630003645 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 272630003646 PAS domain; Region: PAS_9; pfam13426 272630003647 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 272630003648 putative active site [active] 272630003649 heme pocket [chemical binding]; other site 272630003650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630003651 Histidine kinase; Region: HisKA_2; cl06527 272630003652 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630003653 metal binding site [ion binding]; metal-binding site 272630003654 active site 272630003655 I-site; other site 272630003656 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 272630003657 PAS domain; Region: PAS_9; pfam13426 272630003658 putative active site [active] 272630003659 heme pocket [chemical binding]; other site 272630003660 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 272630003661 PAS fold; Region: PAS_3; pfam08447 272630003662 putative active site [active] 272630003663 heme pocket [chemical binding]; other site 272630003664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630003665 Histidine kinase; Region: HisKA_2; cl06527 272630003666 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 272630003667 dimer interface [polypeptide binding]; other site 272630003668 phosphorylation site [posttranslational modification] 272630003669 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 272630003670 ATP binding site [chemical binding]; other site 272630003671 Mg2+ binding site [ion binding]; other site 272630003672 G-X-G motif; other site 272630003673 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003674 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 272630003675 active site 272630003676 phosphorylation site [posttranslational modification] 272630003677 intermolecular recognition site; other site 272630003678 dimerization interface [polypeptide binding]; other site 272630003679 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; cl09944 272630003680 intermolecular recognition site; other site 272630003681 active site 272630003682 dimerization interface [polypeptide binding]; other site 272630003683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003684 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 272630003685 non-specific DNA binding site [nucleotide binding]; other site 272630003686 salt bridge; other site 272630003687 sequence-specific DNA binding site [nucleotide binding]; other site 272630003688 Domain of unknown function (DUF955); Region: DUF955; cl01076 272630003689 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 272630003690 active site 272630003691 NTP binding site [chemical binding]; other site 272630003692 metal binding triad [ion binding]; metal-binding site 272630003693 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272630003694 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 272630003695 active site 272630003696 nucleophile elbow; other site 272630003697 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272630003698 putative active site [active] 272630003699 catalytic site [active] 272630003700 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 272630003701 putative homodimer interface [polypeptide binding]; other site 272630003702 putative active site [active] 272630003703 catalytic site [active] 272630003704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003705 Predicted transcriptional regulator [Transcription]; Region: COG2345 272630003706 Histidine kinase; Region: HisKA_3; pfam07730 272630003707 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 272630003708 ATP binding site [chemical binding]; other site 272630003709 Mg2+ binding site [ion binding]; other site 272630003710 G-X-G motif; other site 272630003711 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630003712 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 272630003713 active site 272630003714 phosphorylation site [posttranslational modification] 272630003715 intermolecular recognition site; other site 272630003716 dimerization interface [polypeptide binding]; other site 272630003717 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630003718 DNA binding residues [nucleotide binding] 272630003719 dimerization interface [polypeptide binding]; other site 272630003720 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630003721 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 272630003722 S-adenosylmethionine binding site [chemical binding]; other site 272630003723 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 272630003724 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 272630003725 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 272630003726 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 272630003727 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 272630003728 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 272630003729 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 272630003730 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 272630003731 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 272630003732 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 272630003733 GAF domain; Region: GAF_2; pfam13185 272630003734 GAF domain; Region: GAF; cl15785 272630003735 phosphodiesterase; Provisional; Region: PRK12704 272630003736 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 272630003737 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 272630003738 ATP binding site [chemical binding]; other site 272630003739 Mg2+ binding site [ion binding]; other site 272630003740 G-X-G motif; other site 272630003741 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003742 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 272630003743 active site 272630003744 phosphorylation site [posttranslational modification] 272630003745 intermolecular recognition site; other site 272630003746 dimerization interface [polypeptide binding]; other site 272630003747 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003748 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 272630003749 active site 272630003750 phosphorylation site [posttranslational modification] 272630003751 intermolecular recognition site; other site 272630003752 dimerization interface [polypeptide binding]; other site 272630003753 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003754 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 272630003755 active site 272630003756 phosphorylation site [posttranslational modification] 272630003757 intermolecular recognition site; other site 272630003758 dimerization interface [polypeptide binding]; other site 272630003759 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003760 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 272630003761 active site 272630003762 phosphorylation site [posttranslational modification] 272630003763 intermolecular recognition site; other site 272630003764 dimerization interface [polypeptide binding]; other site 272630003765 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272630003766 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630003767 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 272630003768 dimer interface [polypeptide binding]; other site 272630003769 phosphorylation site [posttranslational modification] 272630003770 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 272630003771 ATP binding site [chemical binding]; other site 272630003772 Mg2+ binding site [ion binding]; other site 272630003773 G-X-G motif; other site 272630003774 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003775 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 272630003776 active site 272630003777 phosphorylation site [posttranslational modification] 272630003778 intermolecular recognition site; other site 272630003779 dimerization interface [polypeptide binding]; other site 272630003780 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 272630003781 NmrA-like family; Region: NmrA; pfam05368 272630003782 NADP binding site [chemical binding]; other site 272630003783 active site 272630003784 regulatory binding site [polypeptide binding]; other site 272630003785 LysR family transcriptional regulator; Provisional; Region: PRK14997 272630003786 Helix-turn-helix domains; Region: HTH; cl00088 272630003787 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630003788 putative effector binding pocket; other site 272630003789 dimerization interface [polypeptide binding]; other site 272630003790 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 272630003791 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272630003792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630003793 Helix-turn-helix domains; Region: HTH; cl00088 272630003794 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 272630003795 dimerization interface [polypeptide binding]; other site 272630003796 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272630003797 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 272630003798 putative ligand binding site [chemical binding]; other site 272630003799 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 272630003800 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 272630003801 Creatinine amidohydrolase; Region: Creatininase; cl00618 272630003802 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 272630003803 AMP-binding enzyme; Region: AMP-binding; cl15778 272630003804 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630003805 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272630003806 FAD binding domain; Region: FAD_binding_4; pfam01565 272630003807 oxidase reductase; Provisional; Region: PTZ00273 272630003808 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 272630003809 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 272630003810 NMT1/THI5 like; Region: NMT1; pfam09084 272630003811 NMT1-like family; Region: NMT1_2; cl15260 272630003812 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 272630003813 iron-sulfur cluster [ion binding]; other site 272630003814 [2Fe-2S] cluster binding site [ion binding]; other site 272630003815 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 272630003816 hydrophobic ligand binding site; other site 272630003817 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 272630003818 dimer interface [polypeptide binding]; other site 272630003819 conserved gate region; other site 272630003820 putative PBP binding loops; other site 272630003821 ABC-ATPase subunit interface; other site 272630003822 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630003823 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630003824 Walker A/P-loop; other site 272630003825 ATP binding site [chemical binding]; other site 272630003826 Q-loop/lid; other site 272630003827 ABC transporter signature motif; other site 272630003828 Walker B; other site 272630003829 D-loop; other site 272630003830 H-loop/switch region; other site 272630003831 NMT1/THI5 like; Region: NMT1; pfam09084 272630003832 Helix-turn-helix domains; Region: HTH; cl00088 272630003833 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 272630003834 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 272630003835 dimerization interface [polypeptide binding]; other site 272630003836 cytosine deaminase-like protein; Validated; Region: PRK07583 272630003837 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 272630003838 active site 272630003839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630003840 Helix-turn-helix domains; Region: HTH; cl00088 272630003841 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 272630003842 dimerization interface [polypeptide binding]; other site 272630003843 guanine deaminase; Provisional; Region: PRK09228 272630003844 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 272630003845 active site 272630003846 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272630003847 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 272630003848 catalytic loop [active] 272630003849 iron binding site [ion binding]; other site 272630003850 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630003851 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 272630003852 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630003853 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630003854 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 272630003855 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; cl15306 272630003856 NMT1/THI5 like; Region: NMT1; pfam09084 272630003857 substrate binding pocket [chemical binding]; other site 272630003858 membrane-bound complex binding site; other site 272630003859 hinge residues; other site 272630003860 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 272630003861 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272630003862 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 272630003863 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630003864 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 272630003865 Walker A/P-loop; other site 272630003866 ATP binding site [chemical binding]; other site 272630003867 Q-loop/lid; other site 272630003868 ABC transporter signature motif; other site 272630003869 Walker B; other site 272630003870 D-loop; other site 272630003871 H-loop/switch region; other site 272630003872 Flavin Reductases; Region: FlaRed; cl00801 272630003873 pyrimidine utilization protein D; Region: RutD; TIGR03611 272630003874 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630003875 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 272630003876 homotrimer interaction site [polypeptide binding]; other site 272630003877 putative active site [active] 272630003878 Isochorismatase family; Region: Isochorismatase; pfam00857 272630003879 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 272630003880 catalytic triad [active] 272630003881 conserved cis-peptide bond; other site 272630003882 pyrimidine utilization protein A; Region: RutA; TIGR03612 272630003883 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 272630003884 active site 272630003885 dimer interface [polypeptide binding]; other site 272630003886 non-prolyl cis peptide bond; other site 272630003887 insertion regions; other site 272630003888 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 272630003889 Helix-turn-helix domains; Region: HTH; cl00088 272630003890 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 272630003891 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 272630003892 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 272630003893 hypothetical protein; Provisional; Region: PRK11171 272630003894 Cupin domain; Region: Cupin_2; cl09118 272630003895 Cupin domain; Region: Cupin_2; cl09118 272630003896 Predicted membrane protein [Function unknown]; Region: COG3748 272630003897 Protein of unknown function (DUF989); Region: DUF989; pfam06181 272630003898 Cytochrome c; Region: Cytochrom_C; cl11414 272630003899 LysR family transcriptional regulator; Provisional; Region: PRK14997 272630003900 Helix-turn-helix domains; Region: HTH; cl00088 272630003901 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630003902 putative effector binding pocket; other site 272630003903 dimerization interface [polypeptide binding]; other site 272630003904 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 272630003905 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 272630003906 active site 272630003907 catalytic site [active] 272630003908 tetramer interface [polypeptide binding]; other site 272630003909 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 272630003910 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 272630003911 active site 272630003912 homotetramer interface [polypeptide binding]; other site 272630003913 Protein of unknown function (DUF808); Region: DUF808; cl01002 272630003914 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 272630003915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630003916 metal binding site [ion binding]; metal-binding site 272630003917 active site 272630003918 I-site; other site 272630003919 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630003920 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 272630003921 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 272630003922 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 272630003923 active site 272630003924 substrate binding site [chemical binding]; other site 272630003925 ATP binding site [chemical binding]; other site 272630003926 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272630003927 putative acyl-acceptor binding pocket; other site 272630003928 topology modulation protein; Reviewed; Region: PRK08118 272630003929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630003930 active site 272630003931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630003932 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 272630003933 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630003934 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 272630003935 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 272630003936 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272630003937 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 272630003938 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 272630003939 heme binding site [chemical binding]; other site 272630003940 ferroxidase pore; other site 272630003941 ferroxidase diiron center [ion binding]; other site 272630003942 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272630003943 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 272630003944 Ligand Binding Site [chemical binding]; other site 272630003945 OpgC protein; Region: OpgC_C; cl00792 272630003946 OpgC protein; Region: OpgC_C; cl00792 272630003947 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630003948 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630003949 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272630003950 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 272630003951 FeS/SAM binding site; other site 272630003952 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 272630003953 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 272630003954 active site 272630003955 oligomerization interface [polypeptide binding]; other site 272630003956 metal binding site [ion binding]; metal-binding site 272630003957 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 272630003958 catalytic residues [active] 272630003959 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 272630003960 active site residue [active] 272630003961 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 272630003962 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 272630003963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630003964 Helix-turn-helix domains; Region: HTH; cl00088 272630003965 division inhibitor protein; Provisional; Region: slmA; PRK09480 272630003966 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 272630003967 active site 272630003968 NTP binding site [chemical binding]; other site 272630003969 metal binding triad [ion binding]; metal-binding site 272630003970 antibiotic binding site [chemical binding]; other site 272630003971 Protein of unknown function DUF86; Region: DUF86; cl01031 272630003972 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272630003973 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 272630003974 P-loop, Walker A motif; other site 272630003975 Base recognition motif; other site 272630003976 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272630003977 GAF domain; Region: GAF_2; pfam13185 272630003978 GAF domain; Region: GAF; cl15785 272630003979 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630003980 PAS domain S-box; Region: sensory_box; TIGR00229 272630003981 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630003982 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 272630003983 PAS fold; Region: PAS_3; pfam08447 272630003984 putative active site [active] 272630003985 heme pocket [chemical binding]; other site 272630003986 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 272630003987 dimer interface [polypeptide binding]; other site 272630003988 phosphorylation site [posttranslational modification] 272630003989 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 272630003990 ATP binding site [chemical binding]; other site 272630003991 Mg2+ binding site [ion binding]; other site 272630003992 G-X-G motif; other site 272630003993 Response regulator receiver domain; Region: Response_reg; pfam00072 272630003994 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 272630003995 active site 272630003996 phosphorylation site [posttranslational modification] 272630003997 intermolecular recognition site; other site 272630003998 dimerization interface [polypeptide binding]; other site 272630003999 YcjX-like family, DUF463; Region: DUF463; cl01193 272630004000 Domain of unknown function (DUF697); Region: DUF697; cl12064 272630004001 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630004002 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272630004003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272630004004 active site 272630004005 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272630004006 substrate binding site [chemical binding]; other site 272630004007 catalytic residues [active] 272630004008 dimer interface [polypeptide binding]; other site 272630004009 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 272630004010 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 272630004011 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272630004012 RNA/DNA hybrid binding site [nucleotide binding]; other site 272630004013 active site 272630004014 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 272630004015 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630004016 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 272630004017 putative active site [active] 272630004018 putative metal binding site [ion binding]; other site 272630004019 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272630004020 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 272630004021 homodimer interface [polypeptide binding]; other site 272630004022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630004023 catalytic residue [active] 272630004024 glycerate dehydrogenase; Provisional; Region: PRK06487 272630004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004026 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 272630004027 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 272630004028 NADP binding site [chemical binding]; other site 272630004029 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 272630004030 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 272630004031 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630004032 CoA-ligase; Region: Ligase_CoA; cl02894 272630004033 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272630004034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004035 CoA-ligase; Region: Ligase_CoA; cl02894 272630004036 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 272630004037 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 272630004038 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; cl09155 272630004039 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 272630004040 Dienelactone hydrolase family; Region: DLH; pfam01738 272630004041 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630004042 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 272630004043 aromatic arch; other site 272630004044 DCoH dimer interaction site [polypeptide binding]; other site 272630004045 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 272630004046 DCoH tetramer interaction site [polypeptide binding]; other site 272630004047 substrate binding site [chemical binding]; other site 272630004048 NMT1-like family; Region: NMT1_2; cl15260 272630004049 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 272630004050 dimer interface [polypeptide binding]; other site 272630004051 conserved gate region; other site 272630004052 putative PBP binding loops; other site 272630004053 ABC-ATPase subunit interface; other site 272630004054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004055 Walker A/P-loop; other site 272630004056 ATP binding site [chemical binding]; other site 272630004057 ABC transporter; Region: ABC_tran; pfam00005 272630004058 Q-loop/lid; other site 272630004059 ABC transporter signature motif; other site 272630004060 Walker B; other site 272630004061 D-loop; other site 272630004062 H-loop/switch region; other site 272630004063 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272630004064 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 272630004065 Trp docking motif [polypeptide binding]; other site 272630004066 dimer interface [polypeptide binding]; other site 272630004067 active site 272630004068 small subunit binding site [polypeptide binding]; other site 272630004069 Cytochrome c; Region: Cytochrom_C; cl11414 272630004070 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 272630004071 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 272630004072 substrate binding pocket [chemical binding]; other site 272630004073 membrane-bound complex binding site; other site 272630004074 hinge residues; other site 272630004075 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 272630004076 catalytic center binding site [active] 272630004077 ATP binding site [chemical binding]; other site 272630004078 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 272630004079 homooctamer interface [polypeptide binding]; other site 272630004080 active site 272630004081 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 272630004082 dihydropteroate synthase; Region: DHPS; TIGR01496 272630004083 substrate binding pocket [chemical binding]; other site 272630004084 dimer interface [polypeptide binding]; other site 272630004085 inhibitor binding site; inhibition site 272630004086 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 272630004087 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 272630004088 FeS/SAM binding site; other site 272630004089 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 272630004090 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 272630004091 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 272630004092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630004093 PqqA family; Region: PqqA; cl15372 272630004094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630004095 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 272630004096 active site 272630004097 phosphorylation site [posttranslational modification] 272630004098 intermolecular recognition site; other site 272630004099 dimerization interface [polypeptide binding]; other site 272630004100 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 272630004101 DNA binding site [nucleotide binding] 272630004102 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 272630004103 dimer interface [polypeptide binding]; other site 272630004104 phosphorylation site [posttranslational modification] 272630004105 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 272630004106 ATP binding site [chemical binding]; other site 272630004107 Mg2+ binding site [ion binding]; other site 272630004108 G-X-G motif; other site 272630004109 FwdC/FmdC. This domain of unknown function is found in the subunit C of formylmethanofuran dehydrogenase, an enzyme that catalyzes the first step in methane formation from CO2 in methanogenic archaea, hyperthermophiles and bacteria. There are two...; Region: FwdC/FmdC; cd00980 272630004110 putative subunit interface; other site 272630004111 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 272630004112 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 272630004113 FTR, proximal lobe; Region: FTR_C; pfam02741 272630004114 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 272630004115 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 272630004116 active site 272630004117 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 272630004118 molybdopterin cofactor binding site; other site 272630004119 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 272630004120 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 272630004121 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 272630004122 NADP binding site [chemical binding]; other site 272630004123 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630004124 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 272630004125 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 272630004126 trimer interface I [polypeptide binding]; other site 272630004127 putative substrate binding pocket [chemical binding]; other site 272630004128 trimer interface II [polypeptide binding]; other site 272630004129 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 272630004130 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630004131 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 272630004132 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 272630004133 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272630004134 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 272630004135 active site 272630004136 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 272630004137 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272630004138 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630004139 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630004140 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630004141 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630004142 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 272630004143 putative hydrophobic ligand binding site [chemical binding]; other site 272630004144 protein interface [polypeptide binding]; other site 272630004145 gate; other site 272630004146 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 272630004147 putative hydrophobic ligand binding site [chemical binding]; other site 272630004148 protein interface [polypeptide binding]; other site 272630004149 gate; other site 272630004150 Flavin Reductases; Region: FlaRed; cl00801 272630004151 dihydropteroate synthase-related protein; Region: TIGR00284 272630004152 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 272630004153 substrate binding pocket [chemical binding]; other site 272630004154 dimer interface [polypeptide binding]; other site 272630004155 inhibitor binding site; inhibition site 272630004156 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 272630004157 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 272630004158 nucleotide binding site [chemical binding]; other site 272630004159 substrate binding site [chemical binding]; other site 272630004160 Protein of unknown function (DUF556); Region: DUF556; cl00822 272630004161 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 272630004162 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 272630004163 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630004164 ligand binding site [chemical binding]; other site 272630004165 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 272630004166 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630004167 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272630004168 structural tetrad; other site 272630004169 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272630004170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004171 Walker A/P-loop; other site 272630004172 ATP binding site [chemical binding]; other site 272630004173 Q-loop/lid; other site 272630004174 ABC transporter signature motif; other site 272630004175 Walker B; other site 272630004176 D-loop; other site 272630004177 H-loop/switch region; other site 272630004178 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630004179 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272630004180 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; cl00284 272630004181 EF-hand domain pair; Region: EF_hand_5; pfam13499 272630004182 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 272630004183 Ca2+ binding site [ion binding]; other site 272630004184 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 272630004185 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 272630004186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004187 Bacterial sugar transferase; Region: Bac_transf; cl00939 272630004188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630004189 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 272630004190 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 272630004191 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272630004192 SLBB domain; Region: SLBB; pfam10531 272630004193 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 272630004194 Chain length determinant protein; Region: Wzz; cl15801 272630004195 Chain length determinant protein; Region: Wzz; cl15801 272630004196 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 272630004197 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 272630004198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004199 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272630004200 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 272630004201 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 272630004202 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 272630004203 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272630004204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004205 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 272630004206 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630004207 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272630004208 putative C-terminal domain interface [polypeptide binding]; other site 272630004209 putative GSH binding site (G-site) [chemical binding]; other site 272630004210 putative dimer interface [polypeptide binding]; other site 272630004211 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272630004212 N-terminal domain interface [polypeptide binding]; other site 272630004213 dimer interface [polypeptide binding]; other site 272630004214 substrate binding pocket (H-site) [chemical binding]; other site 272630004215 Uncharacterized conserved protein [Function unknown]; Region: COG3287 272630004216 FIST N domain; Region: FIST; cl10701 272630004217 FIST C domain; Region: FIST_C; pfam10442 272630004218 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 272630004219 dimer interface [polypeptide binding]; other site 272630004220 phosphorylation site [posttranslational modification] 272630004221 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 272630004222 ATP binding site [chemical binding]; other site 272630004223 Mg2+ binding site [ion binding]; other site 272630004224 G-X-G motif; other site 272630004225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630004226 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 272630004227 active site 272630004228 phosphorylation site [posttranslational modification] 272630004229 intermolecular recognition site; other site 272630004230 dimerization interface [polypeptide binding]; other site 272630004231 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630004232 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 272630004233 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630004234 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630004235 substrate binding pocket [chemical binding]; other site 272630004236 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630004237 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 catalyze...; Region: LT_GEWL; cd00254 272630004238 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630004239 catalytic residue [active] 272630004240 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 272630004241 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 272630004242 putative [4Fe-4S] binding site [ion binding]; other site 272630004243 putative molybdopterin cofactor binding site [chemical binding]; other site 272630004244 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 272630004245 putative molybdopterin cofactor binding site; other site 272630004246 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 272630004247 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272630004248 Walker A/P-loop; other site 272630004249 ATP binding site [chemical binding]; other site 272630004250 Q-loop/lid; other site 272630004251 ABC transporter signature motif; other site 272630004252 Walker B; other site 272630004253 D-loop; other site 272630004254 H-loop/switch region; other site 272630004255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272630004256 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272630004257 Walker A/P-loop; other site 272630004258 ATP binding site [chemical binding]; other site 272630004259 Q-loop/lid; other site 272630004260 ABC transporter signature motif; other site 272630004261 Walker B; other site 272630004262 D-loop; other site 272630004263 H-loop/switch region; other site 272630004264 Sulfatase; Region: Sulfatase; cl10460 272630004265 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 272630004266 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 272630004267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004268 Walker A/P-loop; other site 272630004269 ATP binding site [chemical binding]; other site 272630004270 Q-loop/lid; other site 272630004271 ABC transporter signature motif; other site 272630004272 Walker B; other site 272630004273 D-loop; other site 272630004274 H-loop/switch region; other site 272630004275 ABC transporter; Region: ABC_tran_2; pfam12848 272630004276 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630004277 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 272630004278 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 272630004279 active site 272630004280 substrate binding site [chemical binding]; other site 272630004281 Mg2+ binding site [ion binding]; other site 272630004282 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272630004283 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 272630004284 TPP-binding site; other site 272630004285 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 272630004286 PYR/PP interface [polypeptide binding]; other site 272630004287 dimer interface [polypeptide binding]; other site 272630004288 TPP binding site [chemical binding]; other site 272630004289 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630004290 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 272630004291 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 272630004292 putative NADP binding site [chemical binding]; other site 272630004293 putative substrate binding site [chemical binding]; other site 272630004294 active site 272630004295 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272630004296 active site lid residues [active] 272630004297 substrate binding pocket [chemical binding]; other site 272630004298 catalytic residues [active] 272630004299 substrate-Mg2+ binding site; other site 272630004300 aspartate-rich region 1; other site 272630004301 aspartate-rich region 2; other site 272630004302 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272630004303 active site lid residues [active] 272630004304 substrate binding pocket [chemical binding]; other site 272630004305 catalytic residues [active] 272630004306 substrate-Mg2+ binding site; other site 272630004307 aspartate-rich region 1; other site 272630004308 aspartate-rich region 2; other site 272630004309 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 272630004310 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 272630004311 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 272630004312 Active site cavity [active] 272630004313 catalytic acid [active] 272630004314 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; cl15754 272630004315 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630004316 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272630004317 substrate-cofactor binding pocket; other site 272630004318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630004319 catalytic residue [active] 272630004320 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 272630004321 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 272630004322 active site 272630004323 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272630004324 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 272630004325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004326 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 272630004327 Enoylreductase; Region: PKS_ER; smart00829 272630004328 NAD(P) binding site [chemical binding]; other site 272630004329 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 272630004330 putative NADP binding site [chemical binding]; other site 272630004331 active site 272630004332 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630004333 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 272630004334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004335 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272630004336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004337 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 272630004338 Probable Catalytic site; other site 272630004339 metal-binding site 272630004340 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630004341 Probable Catalytic site; other site 272630004342 metal-binding site 272630004343 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272630004344 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 272630004345 Protein of unknown function, DUF462; Region: DUF462; cl01190 272630004346 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 272630004347 active site 272630004348 phosphorylation site [posttranslational modification] 272630004349 intermolecular recognition site; other site 272630004350 response regulator FixJ; Provisional; Region: fixJ; PRK09390 272630004351 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 272630004352 active site 272630004353 phosphorylation site [posttranslational modification] 272630004354 intermolecular recognition site; other site 272630004355 dimerization interface [polypeptide binding]; other site 272630004356 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630004357 DNA binding residues [nucleotide binding] 272630004358 dimerization interface [polypeptide binding]; other site 272630004359 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 272630004360 PAS domain; Region: PAS_9; pfam13426 272630004361 putative active site [active] 272630004362 heme pocket [chemical binding]; other site 272630004363 PAS domain S-box; Region: sensory_box; TIGR00229 272630004364 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 272630004365 putative active site [active] 272630004366 heme pocket [chemical binding]; other site 272630004367 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 272630004368 dimer interface [polypeptide binding]; other site 272630004369 phosphorylation site [posttranslational modification] 272630004370 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 272630004371 ATP binding site [chemical binding]; other site 272630004372 Mg2+ binding site [ion binding]; other site 272630004373 G-X-G motif; other site 272630004374 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272630004375 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630004376 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630004377 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272630004378 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 272630004379 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 272630004380 FAD binding pocket [chemical binding]; other site 272630004381 FAD binding motif [chemical binding]; other site 272630004382 phosphate binding motif [ion binding]; other site 272630004383 beta-alpha-beta structure motif; other site 272630004384 NAD binding pocket [chemical binding]; other site 272630004385 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 272630004386 catalytic loop [active] 272630004387 iron binding site [ion binding]; other site 272630004388 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630004389 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630004390 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 272630004391 glycogen branching enzyme; Provisional; Region: PRK05402 272630004392 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 272630004393 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 272630004394 active site 272630004395 catalytic site [active] 272630004396 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272630004397 glycogen synthase; Provisional; Region: glgA; PRK00654 272630004398 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272630004399 ADP-binding pocket [chemical binding]; other site 272630004400 homodimer interface [polypeptide binding]; other site 272630004401 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 272630004402 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630004403 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630004404 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 272630004405 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630004406 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 272630004407 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630004408 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 272630004409 Domain interface; other site 272630004410 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 272630004411 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 272630004412 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 272630004413 transketolase; Reviewed; Region: PRK05899 272630004414 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 272630004415 TPP-binding site [chemical binding]; other site 272630004416 dimer interface [polypeptide binding]; other site 272630004417 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 272630004418 PYR/PP interface [polypeptide binding]; other site 272630004419 dimer interface [polypeptide binding]; other site 272630004420 TPP binding site [chemical binding]; other site 272630004421 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630004422 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 272630004423 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 272630004424 putative active site [active] 272630004425 catalytic residue [active] 272630004426 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 272630004427 active site 272630004428 dimer interface [polypeptide binding]; other site 272630004429 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 272630004430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004431 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 272630004432 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272630004433 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272630004434 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272630004435 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272630004436 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 272630004437 active site 272630004438 motif I; other site 272630004439 motif II; other site 272630004440 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630004441 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 272630004442 putative active site [active] 272630004443 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 272630004444 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 272630004445 ATP-binding site [chemical binding]; other site 272630004446 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 272630004447 active site 272630004448 motif I; other site 272630004449 motif II; other site 272630004450 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 272630004451 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004452 AAA-like domain; Region: AAA_10; pfam12846 272630004453 Walker A motif; other site 272630004454 ATP binding site [chemical binding]; other site 272630004455 Walker B motif; other site 272630004456 Phospholipid methyltransferase; Region: PEMT; cl00763 272630004457 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 272630004458 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630004459 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630004460 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 272630004461 motif II; other site 272630004462 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272630004463 Acetokinase family; Region: Acetate_kinase; cl01029 272630004464 propionate/acetate kinase; Provisional; Region: PRK12379 272630004465 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272630004466 Helix-turn-helix domains; Region: HTH; cl00088 272630004467 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 272630004468 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cl07672 272630004469 Domain interface; other site 272630004470 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630004471 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630004472 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272630004473 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 272630004474 P-loop; other site 272630004475 Magnesium ion binding site [ion binding]; other site 272630004476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004477 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630004478 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 272630004479 active site 272630004480 DNA binding site [nucleotide binding] 272630004481 Int/Topo IB signature motif; other site 272630004482 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272630004483 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 272630004484 putative substrate translocation pore; other site 272630004485 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 272630004486 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 272630004487 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 272630004488 Dehydratase family; Region: ILVD_EDD; cl00340 272630004489 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272630004490 Sel1 repeat; Region: Sel1; cl02723 272630004491 Sel1 repeat; Region: Sel1; cl02723 272630004492 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 272630004493 putative catalytic site [active] 272630004494 putative phosphate binding site [ion binding]; other site 272630004495 active site 272630004496 metal binding site A [ion binding]; metal-binding site 272630004497 DNA binding site [nucleotide binding] 272630004498 putative AP binding site [nucleotide binding]; other site 272630004499 putative metal binding site B [ion binding]; other site 272630004500 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 272630004501 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272630004502 AMP-binding enzyme; Region: AMP-binding; cl15778 272630004503 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630004504 Protein of unknown function (DUF465); Region: DUF465; cl01070 272630004505 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 272630004506 AIR carboxylase; Region: AIRC; cl00310 272630004507 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 272630004508 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630004509 TPR repeat; Region: TPR_11; pfam13414 272630004510 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 272630004511 binding surface 272630004512 TPR motif; other site 272630004513 TPR repeat; Region: TPR_11; pfam13414 272630004514 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 272630004515 binding surface 272630004516 TPR motif; other site 272630004517 TPR repeat; Region: TPR_11; pfam13414 272630004518 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 272630004519 putative active site [active] 272630004520 homoserine dehydrogenase; Provisional; Region: PRK06349 272630004521 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272630004522 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 272630004523 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 272630004524 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 272630004525 Nucleoside recognition; Region: Gate; cl00486 272630004526 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 272630004527 Predicted methyltransferase [General function prediction only]; Region: COG3897 272630004528 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 272630004529 putative ADP-binding pocket [chemical binding]; other site 272630004530 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 272630004531 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 272630004532 active site 272630004533 DNA binding site [nucleotide binding] 272630004534 Int/Topo IB signature motif; other site 272630004535 catalytic residues [active] 272630004536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630004537 dimer interface [polypeptide binding]; other site 272630004538 putative CheW interface [polypeptide binding]; other site 272630004539 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272630004540 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630004541 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630004542 DNA binding residues [nucleotide binding] 272630004543 dimerization interface [polypeptide binding]; other site 272630004544 Response regulator receiver domain; Region: Response_reg; pfam00072 272630004545 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 272630004546 active site 272630004547 phosphorylation site [posttranslational modification] 272630004548 intermolecular recognition site; other site 272630004549 dimerization interface [polypeptide binding]; other site 272630004550 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630004551 metal binding site [ion binding]; metal-binding site 272630004552 active site 272630004553 I-site; other site 272630004554 Iron permease FTR1 family; Region: FTR1; cl00475 272630004555 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272630004556 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272630004557 active site 272630004558 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 272630004559 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 272630004560 histidinol dehydrogenase; Region: hisD; TIGR00069 272630004561 NAD binding site [chemical binding]; other site 272630004562 dimerization interface [polypeptide binding]; other site 272630004563 product binding site; other site 272630004564 substrate binding site [chemical binding]; other site 272630004565 zinc binding site [ion binding]; other site 272630004566 catalytic residues [active] 272630004567 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 272630004568 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 272630004569 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 272630004570 hinge; other site 272630004571 active site 272630004572 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630004573 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272630004574 substrate-cofactor binding pocket; other site 272630004575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630004576 catalytic residue [active] 272630004577 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 272630004578 PhnA protein; Region: PhnA; pfam03831 272630004579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630004580 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 272630004581 hypothetical protein; Provisional; Region: PRK11820 272630004582 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272630004583 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272630004584 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 272630004585 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 272630004586 catalytic site [active] 272630004587 G-X2-G-X-G-K; other site 272630004588 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272630004589 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630004590 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 272630004591 Walker A/P-loop; other site 272630004592 ATP binding site [chemical binding]; other site 272630004593 Q-loop/lid; other site 272630004594 ABC transporter signature motif; other site 272630004595 Walker B; other site 272630004596 D-loop; other site 272630004597 H-loop/switch region; other site 272630004598 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630004599 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 272630004600 putative FMN binding site [chemical binding]; other site 272630004601 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 272630004602 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630004603 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 272630004604 N-terminal plug; other site 272630004605 ligand-binding site [chemical binding]; other site 272630004606 KDPG and KHG aldolase; Region: Aldolase; pfam01081 272630004607 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272630004608 active site 272630004609 intersubunit interface [polypeptide binding]; other site 272630004610 catalytic residue [active] 272630004611 Dehydratase family; Region: ILVD_EDD; cl00340 272630004612 6-phosphogluconate dehydratase; Region: edd; TIGR01196 272630004613 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 272630004614 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 272630004615 dimerization interface [polypeptide binding]; other site 272630004616 domain crossover interface; other site 272630004617 redox-dependent activation switch; other site 272630004618 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630004619 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630004620 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630004621 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 272630004622 Peptidase family M48; Region: Peptidase_M48; cl12018 272630004623 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 272630004624 Protein of unknown function (DUF466); Region: DUF466; cl01082 272630004625 carbon starvation protein A; Provisional; Region: PRK15015 272630004626 Carbon starvation protein CstA; Region: CstA; pfam02554 272630004627 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 272630004628 Repair protein; Region: Repair_PSII; cl01535 272630004629 Repair protein; Region: Repair_PSII; cl01535 272630004630 LemA family; Region: LemA; cl00742 272630004631 Rdx family; Region: Rdx; cl01407 272630004632 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 272630004633 PAS domain; Region: PAS_9; pfam13426 272630004634 putative active site [active] 272630004635 heme pocket [chemical binding]; other site 272630004636 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630004637 Histidine kinase; Region: HisKA_2; cl06527 272630004638 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 272630004639 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272630004640 active site 272630004641 catalytic tetrad [active] 272630004642 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 272630004643 ligand binding site [chemical binding]; other site 272630004644 flexible hinge region; other site 272630004645 Helix-turn-helix domains; Region: HTH; cl00088 272630004646 glycogen synthase; Provisional; Region: glgA; PRK00654 272630004647 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 272630004648 ADP-binding pocket [chemical binding]; other site 272630004649 homodimer interface [polypeptide binding]; other site 272630004650 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272630004651 homodimer interface [polypeptide binding]; other site 272630004652 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272630004653 active site pocket [active] 272630004654 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 272630004655 FAD binding pocket [chemical binding]; other site 272630004656 FAD binding motif [chemical binding]; other site 272630004657 phosphate binding motif [ion binding]; other site 272630004658 beta-alpha-beta structure motif; other site 272630004659 NAD binding pocket [chemical binding]; other site 272630004660 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 272630004661 PAS fold; Region: PAS_3; pfam08447 272630004662 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630004663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630004664 metal binding site [ion binding]; metal-binding site 272630004665 active site 272630004666 I-site; other site 272630004667 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 272630004668 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 272630004669 Mg++ binding site [ion binding]; other site 272630004670 putative catalytic motif [active] 272630004671 putative substrate binding site [chemical binding]; other site 272630004672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004673 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272630004674 NAD(P) binding site [chemical binding]; other site 272630004675 active site 272630004676 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630004677 Helix-turn-helix domains; Region: HTH; cl00088 272630004678 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272630004679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004680 NAD(P) binding site [chemical binding]; other site 272630004681 active site 272630004682 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 272630004683 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 272630004684 putative active site [active] 272630004685 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 272630004686 putative active site [active] 272630004687 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 272630004688 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 272630004689 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630004690 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 272630004691 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 272630004692 dimer interface [polypeptide binding]; other site 272630004693 active site 272630004694 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272630004695 catalytic residues [active] 272630004696 substrate binding site [chemical binding]; other site 272630004697 speF element; MexAM1_META1pmiscRNA2 272630004698 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 272630004699 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 272630004700 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272630004701 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 272630004702 FMN binding site [chemical binding]; other site 272630004703 active site 272630004704 substrate binding site [chemical binding]; other site 272630004705 catalytic residue [active] 272630004706 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272630004707 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630004708 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 272630004709 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 272630004710 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 272630004711 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272630004712 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272630004713 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 272630004714 dimer interface [polypeptide binding]; other site 272630004715 active site 272630004716 CoA binding pocket [chemical binding]; other site 272630004717 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 272630004718 IHF dimer interface [polypeptide binding]; other site 272630004719 IHF - DNA interface [nucleotide binding]; other site 272630004720 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 272630004721 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 272630004722 DNA binding residues [nucleotide binding] 272630004723 PrkA family serine protein kinase; Provisional; Region: PRK15455 272630004724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004725 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 272630004726 Uncharacterized conserved protein [Function unknown]; Region: COG2718 272630004727 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 272630004728 SpoVR family protein; Provisional; Region: PRK11767 272630004729 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 272630004730 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 272630004731 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272630004732 active site 272630004733 substrate binding site [chemical binding]; other site 272630004734 cosubstrate binding site; other site 272630004735 catalytic site [active] 272630004736 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272630004737 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 272630004738 dimerization interface [polypeptide binding]; other site 272630004739 putative ATP binding site [chemical binding]; other site 272630004740 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630004741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004742 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 272630004743 polyphosphate kinase; Provisional; Region: PRK05443 272630004744 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 272630004745 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 272630004746 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272630004747 putative domain interface [polypeptide binding]; other site 272630004748 putative active site [active] 272630004749 catalytic site [active] 272630004750 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272630004751 putative domain interface [polypeptide binding]; other site 272630004752 putative active site [active] 272630004753 catalytic site [active] 272630004754 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 272630004755 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 272630004756 aspartate aminotransferase; Provisional; Region: PRK05764 272630004757 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 272630004758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630004759 homodimer interface [polypeptide binding]; other site 272630004760 catalytic residue [active] 272630004761 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 272630004762 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630004763 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630004764 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630004765 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 272630004766 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 272630004767 dimerization interface [polypeptide binding]; other site 272630004768 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630004769 dimer interface [polypeptide binding]; other site 272630004770 putative CheW interface [polypeptide binding]; other site 272630004771 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 272630004772 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 272630004773 rRNA interaction site [nucleotide binding]; other site 272630004774 S8 interaction site; other site 272630004775 putative laminin-1 binding site; other site 272630004776 Uncharacterized conserved protein [Function unknown]; Region: COG3743 272630004777 elongation factor Ts; Provisional; Region: tsf; PRK09377 272630004778 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 272630004779 Elongation factor TS; Region: EF_TS; pfam00889 272630004780 Elongation factor TS; Region: EF_TS; pfam00889 272630004781 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 272630004782 putative nucleotide binding site [chemical binding]; other site 272630004783 uridine monophosphate binding site [chemical binding]; other site 272630004784 homohexameric interface [polypeptide binding]; other site 272630004785 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 272630004786 dimer interface [polypeptide binding]; other site 272630004787 substrate binding site [chemical binding]; other site 272630004788 metal binding sites [ion binding]; metal-binding site 272630004789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630004790 Coenzyme A binding pocket [chemical binding]; other site 272630004791 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 272630004792 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272630004793 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 272630004794 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 272630004795 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 272630004796 trimer interface [polypeptide binding]; other site 272630004797 active site 272630004798 UDP-GlcNAc binding site [chemical binding]; other site 272630004799 lipid binding site [chemical binding]; lipid-binding site 272630004800 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 272630004801 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272630004802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272630004803 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272630004804 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272630004805 Surface antigen; Region: Bac_surface_Ag; cl03097 272630004806 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 272630004807 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 272630004808 active site 272630004809 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 272630004810 protein binding site [polypeptide binding]; other site 272630004811 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 272630004812 putative substrate binding region [chemical binding]; other site 272630004813 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272630004814 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272630004815 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272630004816 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 272630004817 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272630004818 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 272630004819 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 272630004820 catalytic residue [active] 272630004821 putative FPP diphosphate binding site; other site 272630004822 putative FPP binding hydrophobic cleft; other site 272630004823 dimer interface [polypeptide binding]; other site 272630004824 putative IPP diphosphate binding site; other site 272630004825 ribosome recycling factor; Reviewed; Region: frr; PRK00083 272630004826 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 round of...; Region: RRF; cd00520 272630004827 hinge region; other site 272630004828 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 272630004829 HPP family; Region: HPP; pfam04982 272630004830 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 272630004831 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 272630004832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004833 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 272630004834 Helix-turn-helix domains; Region: HTH; cl00088 272630004835 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 272630004836 dimerization interface [polypeptide binding]; other site 272630004837 substrate binding pocket [chemical binding]; other site 272630004838 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630004839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630004840 NAD(P) binding site [chemical binding]; other site 272630004841 active site 272630004842 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 272630004843 TPP-binding site [chemical binding]; other site 272630004844 dimer interface [polypeptide binding]; other site 272630004845 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 272630004846 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 272630004847 PYR/PP interface [polypeptide binding]; other site 272630004848 dimer interface [polypeptide binding]; other site 272630004849 TPP binding site [chemical binding]; other site 272630004850 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630004851 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272630004852 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272630004853 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272630004854 DctM-like transporters; Region: DctM; pfam06808 272630004855 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272630004856 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630004857 Calx-beta domain; Region: Calx-beta; cl02522 272630004858 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 272630004859 generic binding surface II; other site 272630004860 generic binding surface I; other site 272630004861 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 272630004862 putative active site [active] 272630004863 putative catalytic site [active] 272630004864 putative Mg binding site IVb [ion binding]; other site 272630004865 putative phosphate binding site [ion binding]; other site 272630004866 putative DNA binding site [nucleotide binding]; other site 272630004867 putative Mg binding site IVa [ion binding]; other site 272630004868 Bacterial Ig-like domain; Region: Big_5; cl01012 272630004869 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630004870 active site 272630004871 metal binding site [ion binding]; metal-binding site 272630004872 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272630004873 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630004874 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 272630004875 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 272630004876 active site 272630004877 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 272630004878 catalytic triad [active] 272630004879 dimer interface [polypeptide binding]; other site 272630004880 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272630004881 Nitrogen regulatory protein P-II; Region: P-II; smart00938 272630004882 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 272630004883 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 272630004884 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 272630004885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630004886 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272630004887 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 272630004888 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 272630004889 N-terminal plug; other site 272630004890 ligand-binding site [chemical binding]; other site 272630004891 PAS fold; Region: PAS_4; pfam08448 272630004892 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 272630004893 PAS fold; Region: PAS_3; pfam08447 272630004894 putative active site [active] 272630004895 heme pocket [chemical binding]; other site 272630004896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630004897 Histidine kinase; Region: HisKA_2; cl06527 272630004898 Probable phenylalanyl-tRNA synthetase alpha chain; Region: PLN02853 272630004899 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 272630004900 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 272630004901 putative molybdopterin cofactor binding site [chemical binding]; other site 272630004902 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 272630004903 putative molybdopterin cofactor binding site; other site 272630004904 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 272630004905 quinone interaction residues [chemical binding]; other site 272630004906 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 272630004907 active site 272630004908 catalytic residues [active] 272630004909 FMN binding site [chemical binding]; other site 272630004910 substrate binding site [chemical binding]; other site 272630004911 Protein of unknown function (DUF952); Region: DUF952; cl01393 272630004912 Predicted transcriptional regulator [Transcription]; Region: COG2932 272630004913 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 272630004914 Catalytic site [active] 272630004915 serine acetyltransferase; Provisional; Region: cysE; PRK11132 272630004916 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 272630004917 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 272630004918 trimer interface [polypeptide binding]; other site 272630004919 active site 272630004920 substrate binding site [chemical binding]; other site 272630004921 CoA binding site [chemical binding]; other site 272630004922 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 272630004923 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 272630004924 non-specific DNA binding site [nucleotide binding]; other site 272630004925 salt bridge; other site 272630004926 sequence-specific DNA binding site [nucleotide binding]; other site 272630004927 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 272630004928 ADP binding site [chemical binding]; other site 272630004929 magnesium binding site [ion binding]; other site 272630004930 putative shikimate binding site; other site 272630004931 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 272630004932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630004933 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 272630004934 dimer interface [polypeptide binding]; other site 272630004935 phosphorylation site [posttranslational modification] 272630004936 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 272630004937 ATP binding site [chemical binding]; other site 272630004938 Mg2+ binding site [ion binding]; other site 272630004939 G-X-G motif; other site 272630004940 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272630004941 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 272630004942 active site 272630004943 phosphorylation site [posttranslational modification] 272630004944 intermolecular recognition site; other site 272630004945 dimerization interface [polypeptide binding]; other site 272630004946 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 272630004947 DNA binding site [nucleotide binding] 272630004948 Response regulator receiver domain; Region: Response_reg; pfam00072 272630004949 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 272630004950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630004951 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 272630004952 dimer interface [polypeptide binding]; other site 272630004953 phosphorylation site [posttranslational modification] 272630004954 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 272630004955 ATP binding site [chemical binding]; other site 272630004956 Mg2+ binding site [ion binding]; other site 272630004957 G-X-G motif; other site 272630004958 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 272630004959 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630004960 active site 272630004961 metal binding site [ion binding]; metal-binding site 272630004962 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630004963 Helix-turn-helix domains; Region: HTH; cl00088 272630004964 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272630004965 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630004966 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630004967 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 272630004968 N-terminal plug; other site 272630004969 ligand-binding site [chemical binding]; other site 272630004970 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 272630004971 Moco binding site; other site 272630004972 metal coordination site [ion binding]; other site 272630004973 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_3; cd06217 272630004974 FAD binding pocket [chemical binding]; other site 272630004975 FAD binding motif [chemical binding]; other site 272630004976 phosphate binding motif [ion binding]; other site 272630004977 beta-alpha-beta structure motif; other site 272630004978 NAD binding pocket [chemical binding]; other site 272630004979 TIGR02300 family protein; Region: FYDLN_acid 272630004980 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 272630004981 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272630004982 hinge; other site 272630004983 active site 272630004984 cytidylate kinase; Provisional; Region: cmk; PRK00023 272630004985 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 272630004986 CMP-binding site; other site 272630004987 The sites determining sugar specificity; other site 272630004988 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 272630004989 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 272630004990 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 272630004991 homodimer interface [polypeptide binding]; other site 272630004992 active site 272630004993 TDP-binding site; other site 272630004994 acceptor substrate-binding pocket; other site 272630004995 Creatinine amidohydrolase; Region: Creatininase; cl00618 272630004996 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 272630004997 PAS domain; Region: PAS_9; pfam13426 272630004998 putative active site [active] 272630004999 heme pocket [chemical binding]; other site 272630005000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005001 metal binding site [ion binding]; metal-binding site 272630005002 active site 272630005003 I-site; other site 272630005004 CsbD-like; Region: CsbD; cl15799 272630005005 CsbD-like; Region: CsbD; cl15799 272630005006 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272630005007 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 272630005008 putative substrate translocation pore; other site 272630005009 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 272630005010 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272630005011 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 272630005012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005013 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272630005014 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 272630005015 AMP-binding enzyme; Region: AMP-binding; cl15778 272630005016 AMP-binding enzyme; Region: AMP-binding; cl15778 272630005017 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 272630005018 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 272630005019 Helix-turn-helix domains; Region: HTH; cl00088 272630005020 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 272630005021 dimerization interface [polypeptide binding]; other site 272630005022 substrate binding pocket [chemical binding]; other site 272630005023 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 272630005024 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; cl09155 272630005025 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272630005026 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 272630005027 motif II; other site 272630005028 LysR family transcriptional regulator; Provisional; Region: PRK14997 272630005029 Helix-turn-helix domains; Region: HTH; cl00088 272630005030 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630005031 putative effector binding pocket; other site 272630005032 dimerization interface [polypeptide binding]; other site 272630005033 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 272630005034 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630005035 Zn binding site [ion binding]; other site 272630005036 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 272630005037 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630005038 Zn binding site [ion binding]; other site 272630005039 Predicted esterase [General function prediction only]; Region: COG0400 272630005040 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630005041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630005042 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 272630005043 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 272630005044 S17 interaction site [polypeptide binding]; other site 272630005045 S8 interaction site; other site 272630005046 16S rRNA interaction site [nucleotide binding]; other site 272630005047 streptomycin interaction site [chemical binding]; other site 272630005048 23S rRNA interaction site [nucleotide binding]; other site 272630005049 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272630005050 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 272630005051 elongation factor G; Reviewed; Region: PRK00007 272630005052 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272630005053 G1 box; other site 272630005054 putative GEF interaction site [polypeptide binding]; other site 272630005055 GTP/Mg2+ binding site [chemical binding]; other site 272630005056 Switch I region; other site 272630005057 G2 box; other site 272630005058 G3 box; other site 272630005059 Switch II region; other site 272630005060 G4 box; other site 272630005061 G5 box; other site 272630005062 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 272630005063 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 272630005064 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 272630005065 elongation factor Tu; Reviewed; Region: PRK00049 272630005066 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272630005067 G1 box; other site 272630005068 GEF interaction site [polypeptide binding]; other site 272630005069 GTP/Mg2+ binding site [chemical binding]; other site 272630005070 Switch I region; other site 272630005071 G2 box; other site 272630005072 G3 box; other site 272630005073 Switch II region; other site 272630005074 G4 box; other site 272630005075 G5 box; other site 272630005076 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 272630005077 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 272630005078 Antibiotic Binding Site [chemical binding]; other site 272630005079 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 272630005080 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 272630005081 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 272630005082 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 272630005083 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272630005084 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272630005085 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272630005086 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 272630005087 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 272630005088 putative translocon binding site; other site 272630005089 protein-rRNA interface [nucleotide binding]; other site 272630005090 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272630005091 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 272630005092 G-X-X-G motif; other site 272630005093 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272630005094 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 272630005095 23S rRNA interface [nucleotide binding]; other site 272630005096 5S rRNA interface [nucleotide binding]; other site 272630005097 putative antibiotic binding site [chemical binding]; other site 272630005098 L25 interface [polypeptide binding]; other site 272630005099 L27 interface [polypeptide binding]; other site 272630005100 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 272630005101 23S rRNA interface [nucleotide binding]; other site 272630005102 putative translocon interaction site; other site 272630005103 signal recognition particle (SRP54) interaction site; other site 272630005104 L23 interface [polypeptide binding]; other site 272630005105 trigger factor interaction site; other site 272630005106 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 272630005107 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 272630005108 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272630005109 Walker A motif; other site 272630005110 ATP binding site [chemical binding]; other site 272630005111 Walker B motif; other site 272630005112 arginine finger; other site 272630005113 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 272630005114 nudix motif; other site 272630005115 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630005116 Helix-turn-helix domains; Region: HTH; cl00088 272630005117 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 272630005118 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272630005119 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272630005120 alphaNTD - beta interaction site [polypeptide binding]; other site 272630005121 alphaNTD homodimer interface [polypeptide binding]; other site 272630005122 alphaNTD - beta' interaction site [polypeptide binding]; other site 272630005123 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 272630005124 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630005125 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 272630005126 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 272630005127 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 272630005128 adenylate kinase; Reviewed; Region: adk; PRK00279 272630005129 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 272630005130 AMP-binding site [chemical binding]; other site 272630005131 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272630005132 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272630005133 SecY translocase; Region: SecY; pfam00344 272630005134 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 272630005135 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 272630005136 23S rRNA binding site [nucleotide binding]; other site 272630005137 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272630005138 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272630005139 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272630005140 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 272630005141 5S rRNA interface [nucleotide binding]; other site 272630005142 23S rRNA interface [nucleotide binding]; other site 272630005143 L5 interface [polypeptide binding]; other site 272630005144 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272630005145 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272630005146 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 272630005147 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 272630005148 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272630005149 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272630005150 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272630005151 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 272630005152 KOW motif; Region: KOW; cl00354 272630005153 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 272630005154 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272630005155 Catalytic site; other site 272630005156 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 272630005157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005158 metal binding site [ion binding]; metal-binding site 272630005159 active site 272630005160 I-site; other site 272630005161 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272630005162 salicylate hydroxylase; Provisional; Region: PRK08163 272630005163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005164 Zinc-finger domain; Region: zf-CHCC; cl01821 272630005165 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 272630005166 active site 272630005167 hypothetical protein; Reviewed; Region: PRK00024 272630005168 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272630005169 MPN+ (JAMM) motif; other site 272630005170 Zinc-binding site [ion binding]; other site 272630005171 Uncharacterized conserved protein [Function unknown]; Region: COG2308 272630005172 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 272630005173 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 272630005174 potential protein location (hypothetical protein; exported protein) that overlaps protein (hypothetical protein) 272630005175 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein; exported protein) 272630005176 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272630005177 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630005178 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 272630005179 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 272630005180 active site 272630005181 NAD-dependent deacetylase; Provisional; Region: PRK00481 272630005182 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 272630005183 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272630005184 Domain of unknown function DUF21; Region: DUF21; pfam01595 272630005185 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 272630005186 Transporter associated domain; Region: CorC_HlyC; cl08393 272630005187 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272630005188 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630005189 Probable Catalytic site; other site 272630005190 metal-binding site 272630005191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630005192 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 272630005193 similar to hypothetical protein; Evidence 5 : No homology to any previously reported sequences 272630005194 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272630005195 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630005196 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 272630005197 protein binding site [polypeptide binding]; other site 272630005198 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 272630005199 protein binding site [polypeptide binding]; other site 272630005200 Phasin protein; Region: Phasin_2; cl11491 272630005201 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 272630005202 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 272630005203 PAS domain S-box; Region: sensory_box; TIGR00229 272630005204 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 272630005205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005206 metal binding site [ion binding]; metal-binding site 272630005207 active site 272630005208 I-site; other site 272630005209 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 272630005210 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272630005211 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630005212 active site 272630005213 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 272630005214 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 272630005215 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 272630005216 CysD dimerization site [polypeptide binding]; other site 272630005217 G1 box; other site 272630005218 putative GEF interaction site [polypeptide binding]; other site 272630005219 GTP/Mg2+ binding site [chemical binding]; other site 272630005220 Switch I region; other site 272630005221 G2 box; other site 272630005222 G3 box; other site 272630005223 Switch II region; other site 272630005224 G4 box; other site 272630005225 G5 box; other site 272630005226 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 272630005227 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 272630005228 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 272630005229 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 272630005230 Active Sites [active] 272630005231 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 272630005232 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 272630005233 Active Sites [active] 272630005234 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272630005235 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 272630005236 putative DNA binding site [nucleotide binding]; other site 272630005237 putative Zn2+ binding site [ion binding]; other site 272630005238 Helix-turn-helix domains; Region: HTH; cl00088 272630005239 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 272630005240 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630005241 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 272630005242 FAD binding pocket [chemical binding]; other site 272630005243 FAD binding motif [chemical binding]; other site 272630005244 catalytic residues [active] 272630005245 NAD binding pocket [chemical binding]; other site 272630005246 phosphate binding motif [ion binding]; other site 272630005247 beta-alpha-beta structure motif; other site 272630005248 sulfite reductase subunit beta; Provisional; Region: PRK13504 272630005249 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272630005250 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272630005251 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630005252 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 272630005253 N-terminal plug; other site 272630005254 ligand-binding site [chemical binding]; other site 272630005255 pantoate--beta-alanine ligase; Region: panC; TIGR00018 272630005256 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272630005257 active site 272630005258 ATP-binding site [chemical binding]; other site 272630005259 pantoate-binding site; other site 272630005260 HXXH motif; other site 272630005261 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 272630005262 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 272630005263 non-specific DNA binding site [nucleotide binding]; other site 272630005264 salt bridge; other site 272630005265 sequence-specific DNA binding site [nucleotide binding]; other site 272630005266 Cupin domain; Region: Cupin_2; cl09118 272630005267 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 272630005268 dimer interface [polypeptide binding]; other site 272630005269 ssDNA binding site [nucleotide binding]; other site 272630005270 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272630005271 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 272630005272 Prostaglandin dehydrogenases; Region: PGDH; cd05288 272630005273 NAD(P) binding site [chemical binding]; other site 272630005274 substrate binding site [chemical binding]; other site 272630005275 dimer interface [polypeptide binding]; other site 272630005276 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 272630005277 Predicted periplasmic protein [Function unknown]; Region: COG3698 272630005278 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 272630005279 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 272630005280 active site 272630005281 FMN binding site [chemical binding]; other site 272630005282 substrate binding site [chemical binding]; other site 272630005283 homotetramer interface [polypeptide binding]; other site 272630005284 catalytic residue [active] 272630005285 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 272630005286 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630005287 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 272630005288 putative dimer interface [polypeptide binding]; other site 272630005289 N-terminal domain interface [polypeptide binding]; other site 272630005290 putative substrate binding pocket (H-site) [chemical binding]; other site 272630005291 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 272630005292 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630005293 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 272630005294 Trm112p-like protein; Region: Trm112p; cl01066 272630005295 Tim44-like domain; Region: Tim44; cl09208 272630005296 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272630005297 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 272630005298 dimer interface [polypeptide binding]; other site 272630005299 phosphorylation site [posttranslational modification] 272630005300 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 272630005301 ATP binding site [chemical binding]; other site 272630005302 Mg2+ binding site [ion binding]; other site 272630005303 G-X-G motif; other site 272630005304 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630005305 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630005306 PilZ domain; Region: PilZ; cl01260 272630005307 PilZ domain; Region: PilZ; cl01260 272630005308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 272630005309 Rhomboid family; Region: Rhomboid; cl11446 272630005310 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_10; cd04623 272630005311 FOG: CBS domain [General function prediction only]; Region: COG0517 272630005312 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 272630005313 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272630005314 GTP cyclohydrolase I; Provisional; Region: PLN03044 272630005315 active site 272630005316 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 272630005317 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272630005318 trimerization site [polypeptide binding]; other site 272630005319 active site 272630005320 Haemolytic domain; Region: Haemolytic; cl00506 272630005321 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 272630005322 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 272630005323 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272630005324 FtsX-like permease family; Region: FtsX; cl15850 272630005325 FtsX-like permease family; Region: FtsX; cl15850 272630005326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630005327 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 272630005328 ATP binding site [chemical binding]; other site 272630005329 Mg2+ binding site [ion binding]; other site 272630005330 G-X-G motif; other site 272630005331 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 the...; Region: PNPsynthase; cl00541 272630005332 active site 272630005333 hydrophilic channel; other site 272630005334 dimerization interface [polypeptide binding]; other site 272630005335 catalytic residues [active] 272630005336 active site lid [active] 272630005337 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272630005338 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272630005339 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 272630005340 Catalytic site [active] 272630005341 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 272630005342 Catalytic site [active] 272630005343 ribonuclease III; Reviewed; Region: rnc; PRK00102 272630005344 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 272630005345 dimerization interface [polypeptide binding]; other site 272630005346 active site 272630005347 metal binding site [ion binding]; metal-binding site 272630005348 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 272630005349 dsRNA binding site [nucleotide binding]; other site 272630005350 GTPase Era; Reviewed; Region: era; PRK00089 272630005351 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 272630005352 G1 box; other site 272630005353 GTP/Mg2+ binding site [chemical binding]; other site 272630005354 Switch I region; other site 272630005355 G2 box; other site 272630005356 Switch II region; other site 272630005357 G3 box; other site 272630005358 G4 box; other site 272630005359 G5 box; other site 272630005360 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 272630005361 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 272630005362 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 272630005363 S-adenosylmethionine binding site [chemical binding]; other site 272630005364 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272630005365 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 272630005366 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 272630005367 active site 272630005368 uracil binding [chemical binding]; other site 272630005369 potassium uptake protein; Region: kup; TIGR00794 272630005370 K+ potassium transporter; Region: K_trans; cl15781 272630005371 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 272630005372 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 272630005373 putative active site [active] 272630005374 Ap4A binding site [chemical binding]; other site 272630005375 nudix motif; other site 272630005376 putative metal binding site [ion binding]; other site 272630005377 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630005378 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630005379 putative CheW interface [polypeptide binding]; other site 272630005380 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 272630005381 NodB motif; other site 272630005382 putative active site [active] 272630005383 putative catalytic site [active] 272630005384 Zn binding site [ion binding]; other site 272630005385 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 272630005386 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272630005387 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 272630005388 protein binding site [polypeptide binding]; other site 272630005389 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272630005390 Catalytic dyad [active] 272630005391 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 272630005392 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 272630005393 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 272630005394 citrate-proton symporter; Provisional; Region: PRK15075 272630005395 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 272630005396 putative substrate translocation pore; other site 272630005397 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 272630005398 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005399 metal binding site [ion binding]; metal-binding site 272630005400 active site 272630005401 I-site; other site 272630005402 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 272630005403 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 272630005404 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 272630005405 putative catalytic residue [active] 272630005406 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 272630005407 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 272630005408 ANP binding site [chemical binding]; other site 272630005409 Substrate Binding Site II [chemical binding]; other site 272630005410 Substrate Binding Site I [chemical binding]; other site 272630005411 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 272630005412 phosphoglycolate phosphatase; Provisional; Region: PRK13222 272630005413 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630005414 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 272630005415 motif II; other site 272630005416 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630005417 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 272630005418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272630005419 active site 272630005420 dimer interface [polypeptide binding]; other site 272630005421 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 272630005422 O-Antigen ligase; Region: Wzy_C; cl04850 272630005423 glutathione reductase; Validated; Region: PRK06116 272630005424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630005425 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630005426 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272630005427 NMT1-like family; Region: NMT1_2; cl15260 272630005428 OsmC-like protein; Region: OsmC; cl00767 272630005429 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 272630005430 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 272630005431 FeS/SAM binding site; other site 272630005432 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 272630005433 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272630005434 Fe-S cluster binding site [ion binding]; other site 272630005435 active site 272630005436 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272630005437 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630005438 NAD binding site [chemical binding]; other site 272630005439 catalytic Zn binding site [ion binding]; other site 272630005440 structural Zn binding site [ion binding]; other site 272630005441 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 272630005442 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 272630005443 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; cl09155 272630005444 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630005445 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 272630005446 putative C-terminal domain interface [polypeptide binding]; other site 272630005447 putative GSH binding site (G-site) [chemical binding]; other site 272630005448 putative dimer interface [polypeptide binding]; other site 272630005449 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272630005450 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 272630005451 putative heme binding pocket [chemical binding]; other site 272630005452 Flavin Reductases; Region: FlaRed; cl00801 272630005453 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 272630005454 putative FMN binding site [chemical binding]; other site 272630005455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630005456 DNA-binding site [nucleotide binding]; DNA binding site 272630005457 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 272630005458 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 272630005459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630005460 homodimer interface [polypeptide binding]; other site 272630005461 catalytic residue [active] 272630005462 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272630005463 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 272630005464 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272630005465 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 272630005466 active site 272630005467 dimer interface [polypeptide binding]; other site 272630005468 motif 1; other site 272630005469 motif 2; other site 272630005470 motif 3; other site 272630005471 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 272630005472 anticodon binding site; other site 272630005473 fructokinase; Reviewed; Region: PRK09557 272630005474 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272630005475 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272630005476 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 272630005477 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630005478 active site 272630005479 HIGH motif; other site 272630005480 nucleotide binding site [chemical binding]; other site 272630005481 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272630005482 active site 272630005483 KMSKS motif; other site 272630005484 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 272630005485 tRNA binding surface [nucleotide binding]; other site 272630005486 anticodon binding site; other site 272630005487 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272630005488 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272630005489 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272630005490 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272630005491 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272630005492 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272630005493 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 272630005494 Zn binding site [ion binding]; other site 272630005495 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 272630005496 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630005497 Zn binding site [ion binding]; other site 272630005498 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 272630005499 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272630005500 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 272630005501 FAD binding pocket [chemical binding]; other site 272630005502 FAD binding motif [chemical binding]; other site 272630005503 phosphate binding motif [ion binding]; other site 272630005504 beta-alpha-beta structure motif; other site 272630005505 NAD binding pocket [chemical binding]; other site 272630005506 AAA domain; Region: AAA_26; pfam13500 272630005507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630005508 Response regulator receiver domain; Region: Response_reg; pfam00072 272630005509 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 272630005510 active site 272630005511 phosphorylation site [posttranslational modification] 272630005512 intermolecular recognition site; other site 272630005513 dimerization interface [polypeptide binding]; other site 272630005514 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 272630005515 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 272630005516 structural tetrad; other site 272630005517 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 272630005518 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 272630005519 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630005520 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272630005521 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 272630005522 feedback inhibition sensing region; other site 272630005523 homohexameric interface [polypeptide binding]; other site 272630005524 nucleotide binding site [chemical binding]; other site 272630005525 N-acetyl-L-glutamate binding site [chemical binding]; other site 272630005526 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 272630005527 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 272630005528 MOSC domain; Region: MOSC; pfam03473 272630005529 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 272630005530 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 272630005531 MOSC domain; Region: MOSC; pfam03473 272630005532 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272630005533 Clp amino terminal domain; Region: Clp_N; pfam02861 272630005534 Clp amino terminal domain; Region: Clp_N; pfam02861 272630005535 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 272630005536 Walker A motif; other site 272630005537 ATP binding site [chemical binding]; other site 272630005538 Walker B motif; other site 272630005539 arginine finger; other site 272630005540 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 272630005541 Walker A motif; other site 272630005542 ATP binding site [chemical binding]; other site 272630005543 Walker B motif; other site 272630005544 arginine finger; other site 272630005545 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630005546 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272630005547 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630005548 active site 272630005549 metal binding site [ion binding]; metal-binding site 272630005550 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272630005551 Protein of unknown function (DUF423); Region: DUF423; cl01008 272630005552 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 272630005553 G1 box; other site 272630005554 GTP/Mg2+ binding site [chemical binding]; other site 272630005555 Switch I region; other site 272630005556 G2 box; other site 272630005557 G3 box; other site 272630005558 Switch II region; other site 272630005559 G4 box; other site 272630005560 G5 box; other site 272630005561 membrane protein insertase; Provisional; Region: PRK01318 272630005562 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272630005563 Ribonuclease P; Region: Ribonuclease_P; cl00457 272630005564 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 272630005565 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 272630005566 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 272630005567 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 272630005568 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630005569 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 272630005570 Walker A/P-loop; other site 272630005571 ATP binding site [chemical binding]; other site 272630005572 Q-loop/lid; other site 272630005573 ABC transporter signature motif; other site 272630005574 Walker B; other site 272630005575 D-loop; other site 272630005576 H-loop/switch region; other site 272630005577 D-cysteine desulfhydrase; Validated; Region: PRK03910 272630005578 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 272630005579 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630005580 catalytic residue [active] 272630005581 hypothetical protein; Validated; Region: PRK09039 272630005582 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272630005583 ligand binding site [chemical binding]; other site 272630005584 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 272630005585 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630005586 putative active site [active] 272630005587 metal binding site [ion binding]; metal-binding site 272630005588 homodimer binding site [polypeptide binding]; other site 272630005589 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272630005590 Cell division protein ZapA; Region: ZapA; cl01146 272630005591 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 272630005592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005593 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272630005594 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272630005595 Phosphoglycerate kinase; Region: PGK; pfam00162 272630005596 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 272630005597 substrate binding site [chemical binding]; other site 272630005598 hinge regions; other site 272630005599 ADP binding site [chemical binding]; other site 272630005600 catalytic site [active] 272630005601 hypothetical protein; Provisional; Region: PRK08185 272630005602 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 272630005603 intersubunit interface [polypeptide binding]; other site 272630005604 active site 272630005605 zinc binding site [ion binding]; other site 272630005606 Na+ binding site [ion binding]; other site 272630005607 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 272630005608 active site 272630005609 thiamine phosphate binding site [chemical binding]; other site 272630005610 pyrophosphate binding site [ion binding]; other site 272630005611 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272630005612 Sel1 repeat; Region: Sel1; cl02723 272630005613 Sel1 repeat; Region: Sel1; cl02723 272630005614 Sel1 repeat; Region: Sel1; cl02723 272630005615 Spore germination protein; Region: Spore_permease; cl15802 272630005616 amino acid transporter; Region: 2A0306; TIGR00909 272630005617 Spore germination protein; Region: Spore_permease; cl15802 272630005618 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 272630005619 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 272630005620 putative substrate binding site [chemical binding]; other site 272630005621 putative ATP binding site [chemical binding]; other site 272630005622 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272630005623 Nitrogen regulatory protein P-II; Region: P-II; smart00938 272630005624 Glutaminase; Region: Glutaminase; cl00907 272630005625 glutamine synthetase; Region: PLN02284 272630005626 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272630005627 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272630005628 glutamine synthetase; Provisional; Region: glnA; PRK09469 272630005629 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272630005630 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272630005631 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630005632 ribonuclease R; Region: RNase_R; TIGR02063 272630005633 RNB domain; Region: RNB; pfam00773 272630005634 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 272630005635 RNA binding site [nucleotide binding]; other site 272630005636 Protein of unknown function (DUF983); Region: DUF983; cl02211 272630005637 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 272630005638 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 272630005639 PAS domain; Region: PAS_9; pfam13426 272630005640 putative active site [active] 272630005641 heme pocket [chemical binding]; other site 272630005642 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 272630005643 PAS domain; Region: PAS_9; pfam13426 272630005644 putative active site [active] 272630005645 heme pocket [chemical binding]; other site 272630005646 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 272630005647 PAS domain; Region: PAS_9; pfam13426 272630005648 putative active site [active] 272630005649 heme pocket [chemical binding]; other site 272630005650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630005651 dimer interface [polypeptide binding]; other site 272630005652 putative CheW interface [polypeptide binding]; other site 272630005653 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 272630005654 putative NAD(P) binding site [chemical binding]; other site 272630005655 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272630005656 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 272630005657 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630005658 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 272630005659 C-terminal domain interface [polypeptide binding]; other site 272630005660 GSH binding site (G-site) [chemical binding]; other site 272630005661 dimer interface [polypeptide binding]; other site 272630005662 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 272630005663 N-terminal domain interface [polypeptide binding]; other site 272630005664 dimer interface [polypeptide binding]; other site 272630005665 substrate binding pocket (H-site) [chemical binding]; other site 272630005666 Bacitracin resistance protein BacA; Region: BacA; cl00858 272630005667 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 272630005668 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 272630005669 heterodimer interface [polypeptide binding]; other site 272630005670 substrate interaction site [chemical binding]; other site 272630005671 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 272630005672 Cupin domain; Region: Cupin_2; cl09118 272630005673 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272630005674 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272630005675 NAD binding site [chemical binding]; other site 272630005676 substrate binding site [chemical binding]; other site 272630005677 homodimer interface [polypeptide binding]; other site 272630005678 active site 272630005679 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272630005680 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272630005681 NADP binding site [chemical binding]; other site 272630005682 active site 272630005683 putative substrate binding site [chemical binding]; other site 272630005684 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272630005685 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272630005686 substrate binding site; other site 272630005687 tetramer interface; other site 272630005688 multidrug resistance protein MdtN; Provisional; Region: PRK10476 272630005689 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005690 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005691 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 272630005692 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272630005693 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 272630005694 nucleotide binding region [chemical binding]; other site 272630005695 ATP-binding site [chemical binding]; other site 272630005696 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 272630005697 active site 272630005698 putative substrate binding region [chemical binding]; other site 272630005699 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005700 HlyD family secretion protein; Region: HlyD; pfam00529 272630005701 GAF domain; Region: GAF; cl15785 272630005702 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630005703 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005704 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 272630005705 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; cl15754 272630005706 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 272630005707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630005708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005709 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 272630005710 FeS/SAM binding site; other site 272630005711 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 272630005712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630005713 SapC; Region: SapC; pfam07277 272630005714 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 272630005715 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 272630005716 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 272630005717 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 272630005718 S-adenosylmethionine binding site [chemical binding]; other site 272630005719 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 272630005720 B12 binding site [chemical binding]; other site 272630005721 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272630005722 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 272630005723 FeS/SAM binding site; other site 272630005724 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 272630005725 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 272630005726 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272630005727 FeS/SAM binding site; other site 272630005728 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 272630005729 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630005730 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630005731 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630005732 trigger factor; Provisional; Region: tig; PRK01490 272630005733 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272630005734 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272630005735 Clp protease; Region: CLP_protease; pfam00574 272630005736 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272630005737 oligomer interface [polypeptide binding]; other site 272630005738 active site residues [active] 272630005739 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272630005740 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272630005741 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 272630005742 Walker A motif; other site 272630005743 ATP binding site [chemical binding]; other site 272630005744 Walker B motif; other site 272630005745 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630005746 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272630005747 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272630005748 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 272630005749 Walker A motif; other site 272630005750 ATP binding site [chemical binding]; other site 272630005751 Walker B motif; other site 272630005752 arginine finger; other site 272630005753 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272630005754 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 272630005755 putative ADP-binding pocket [chemical binding]; other site 272630005756 probable methyltransferase; Region: TIGR03438 272630005757 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 272630005758 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 272630005759 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272630005760 S-adenosylmethionine binding site [chemical binding]; other site 272630005761 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 272630005762 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272630005763 OPT oligopeptide transporter protein; Region: OPT; cl14607 272630005764 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630005765 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 272630005766 5'-3' exonuclease; Region: 53EXOc; smart00475 272630005767 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272630005768 active site 272630005769 metal binding site 1 [ion binding]; metal-binding site 272630005770 putative 5' ssDNA interaction site; other site 272630005771 metal binding site 3; metal-binding site 272630005772 metal binding site 2 [ion binding]; metal-binding site 272630005773 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272630005774 putative DNA binding site [nucleotide binding]; other site 272630005775 putative metal binding site [ion binding]; other site 272630005776 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 272630005777 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 272630005778 active site 272630005779 catalytic site [active] 272630005780 substrate binding site [chemical binding]; other site 272630005781 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272630005782 active site 272630005783 DNA binding site [nucleotide binding] 272630005784 catalytic site [active] 272630005785 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 272630005786 Active_site [active] 272630005787 GTP-binding protein YchF; Reviewed; Region: PRK09601 272630005788 YchF GTPase; Region: YchF; cd01900 272630005789 G1 box; other site 272630005790 GTP/Mg2+ binding site [chemical binding]; other site 272630005791 Switch I region; other site 272630005792 G2 box; other site 272630005793 Switch II region; other site 272630005794 G3 box; other site 272630005795 G4 box; other site 272630005796 G5 box; other site 272630005797 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 272630005798 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 272630005799 putative active site [active] 272630005800 catalytic residue [active] 272630005801 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 272630005802 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272630005803 5S rRNA interface [nucleotide binding]; other site 272630005804 CTC domain interface [polypeptide binding]; other site 272630005805 L16 interface [polypeptide binding]; other site 272630005806 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 272630005807 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 272630005808 SAF domain; Region: SAF; cl00555 272630005809 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 272630005810 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 272630005811 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272630005812 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 272630005813 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 272630005814 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630005815 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 272630005816 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 272630005817 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 272630005818 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 272630005819 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 272630005820 ATP binding site [chemical binding]; other site 272630005821 Walker A motif; other site 272630005822 hexamer interface [polypeptide binding]; other site 272630005823 Walker B motif; other site 272630005824 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630005825 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630005826 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 272630005827 putative active site [active] 272630005828 putative catalytic site [active] 272630005829 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 272630005830 putative active site [active] 272630005831 putative catalytic site [active] 272630005832 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 272630005833 metabolite-proton symporter; Region: 2A0106; TIGR00883 272630005834 putative substrate translocation pore; other site 272630005835 OsmC-like protein; Region: OsmC; cl00767 272630005836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005837 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 272630005838 CoenzymeA binding site [chemical binding]; other site 272630005839 subunit interaction site [polypeptide binding]; other site 272630005840 PHB binding site; other site 272630005841 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 272630005842 putative substrate translocation pore; other site 272630005843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005844 metal binding site [ion binding]; metal-binding site 272630005845 active site 272630005846 I-site; other site 272630005847 BA14K-like protein; Region: BA14K; pfam07886 272630005848 CsbD-like; Region: CsbD; cl15799 272630005849 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 272630005850 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 272630005851 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272630005852 catalytic site [active] 272630005853 putative active site [active] 272630005854 putative substrate binding site [chemical binding]; other site 272630005855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 272630005856 OstA-like protein; Region: OstA; cl00844 272630005857 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 272630005858 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 272630005859 Walker A/P-loop; other site 272630005860 ATP binding site [chemical binding]; other site 272630005861 Q-loop/lid; other site 272630005862 ABC transporter signature motif; other site 272630005863 Walker B; other site 272630005864 D-loop; other site 272630005865 H-loop/switch region; other site 272630005866 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 272630005867 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272630005868 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272630005869 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272630005870 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 A site; Region: RaiA; cd00552 272630005871 30S subunit binding site; other site 272630005872 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272630005873 active site 272630005874 phosphorylation site [posttranslational modification] 272630005875 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 272630005876 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 272630005877 Walker A motif; other site 272630005878 ATP binding site [chemical binding]; other site 272630005879 Walker B motif; other site 272630005880 arginine finger; other site 272630005881 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630005882 catalytic core [active] 272630005883 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272630005884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005885 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272630005886 MarC family integral membrane protein; Region: MarC; cl00919 272630005887 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272630005888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005889 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272630005890 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630005891 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 272630005892 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 272630005893 active site 272630005894 DNA binding site [nucleotide binding] 272630005895 Int/Topo IB signature motif; other site 272630005896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630005897 metal binding site [ion binding]; metal-binding site 272630005898 active site 272630005899 I-site; other site 272630005900 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 272630005901 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272630005902 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 272630005903 Fibronectin type III-like domain; Region: Fn3-like; cl15273 272630005904 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 272630005905 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 272630005906 dimer interface [polypeptide binding]; other site 272630005907 conserved gate region; other site 272630005908 ABC-ATPase subunit interface; other site 272630005909 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 272630005910 hypothetical protein; Provisional; Region: PRK08912 272630005911 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 272630005912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630005913 homodimer interface [polypeptide binding]; other site 272630005914 catalytic residue [active] 272630005915 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 272630005916 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005917 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630005918 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 272630005919 Protein export membrane protein; Region: SecD_SecF; cl14618 272630005920 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 272630005921 Protein export membrane protein; Region: SecD_SecF; cl14618 272630005922 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 272630005923 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 272630005924 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 272630005925 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272630005926 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272630005927 tartrate dehydrogenase; Provisional; Region: PRK08194 272630005928 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272630005929 benzoylformate decarboxylase; Reviewed; Region: PRK07092 272630005930 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272630005931 PYR/PP interface [polypeptide binding]; other site 272630005932 dimer interface [polypeptide binding]; other site 272630005933 TPP binding site [chemical binding]; other site 272630005934 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272630005935 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 272630005936 TPP-binding site [chemical binding]; other site 272630005937 dimer interface [polypeptide binding]; other site 272630005938 Protein of unknown function, DUF393; Region: DUF393; cl01136 272630005939 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272630005940 substrate binding pocket [chemical binding]; other site 272630005941 chain length determination region; other site 272630005942 substrate-Mg2+ binding site; other site 272630005943 catalytic residues [active] 272630005944 aspartate-rich region 1; other site 272630005945 active site lid residues [active] 272630005946 aspartate-rich region 2; other site 272630005947 Transglycosylase; Region: Transgly; cl07896 272630005948 photolyase PhrII; Region: phr2; TIGR00591 272630005949 DNA photolyase; Region: DNA_photolyase; pfam00875 272630005950 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 272630005951 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272630005952 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272630005953 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 272630005954 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 272630005955 dimerization interface [polypeptide binding]; other site 272630005956 ligand binding site [chemical binding]; other site 272630005957 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 272630005958 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272630005959 Sulfatase; Region: Sulfatase; cl10460 272630005960 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 272630005961 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 272630005962 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 272630005963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630005964 NAD(P) binding site [chemical binding]; other site 272630005965 active site 272630005966 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 272630005967 active site 272630005968 cosubstrate binding site; other site 272630005969 substrate binding site [chemical binding]; other site 272630005970 catalytic site [active] 272630005971 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 272630005972 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 272630005973 homodimer interface [polypeptide binding]; other site 272630005974 substrate-cofactor binding pocket; other site 272630005975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630005976 catalytic residue [active] 272630005977 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 272630005978 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 272630005979 [2Fe-2S] cluster binding site [ion binding]; other site 272630005980 cytochrome b; Provisional; Region: CYTB; MTH00191 272630005981 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 272630005982 Qi binding site; other site 272630005983 intrachain domain interface; other site 272630005984 interchain domain interface [polypeptide binding]; other site 272630005985 heme bH binding site [chemical binding]; other site 272630005986 heme bL binding site [chemical binding]; other site 272630005987 Qo binding site; other site 272630005988 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 272630005989 interchain domain interface [polypeptide binding]; other site 272630005990 intrachain domain interface; other site 272630005991 Qi binding site; other site 272630005992 Qo binding site; other site 272630005993 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 272630005994 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272630005995 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 272630005996 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630005997 active site 272630005998 metal binding site [ion binding]; metal-binding site 272630005999 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272630006000 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 272630006001 4-fold oligomerization interface [polypeptide binding]; other site 272630006002 putative active site pocket [active] 272630006003 metal binding residues [ion binding]; metal-binding site 272630006004 3-fold/trimer interface [polypeptide binding]; other site 272630006005 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 272630006006 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 272630006007 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272630006008 putative active site [active] 272630006009 oxyanion strand; other site 272630006010 catalytic triad [active] 272630006011 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 272630006012 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 272630006013 catalytic residues [active] 272630006014 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 272630006015 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272630006016 substrate binding site [chemical binding]; other site 272630006017 glutamase interaction surface [polypeptide binding]; other site 272630006018 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272630006019 pantothenate kinase; Provisional; Region: PRK05439 272630006020 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 272630006021 ATP-binding site [chemical binding]; other site 272630006022 CoA-binding site [chemical binding]; other site 272630006023 Mg2+-binding site [ion binding]; other site 272630006024 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 272630006025 dimerization interface [polypeptide binding]; other site 272630006026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630006027 dimer interface [polypeptide binding]; other site 272630006028 putative CheW interface [polypeptide binding]; other site 272630006029 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 catalyze...; Region: LT_GEWL; cd00254 272630006030 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630006031 catalytic residue [active] 272630006032 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 272630006033 Response regulator receiver domain; Region: Response_reg; pfam00072 272630006034 active site 272630006035 phosphorylation site [posttranslational modification] 272630006036 intermolecular recognition site; other site 272630006037 dimerization interface [polypeptide binding]; other site 272630006038 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630006039 Phasin protein; Region: Phasin_2; cl11491 272630006040 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 272630006041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630006042 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 272630006043 ATP binding site [chemical binding]; other site 272630006044 Mg2+ binding site [ion binding]; other site 272630006045 G-X-G motif; other site 272630006046 acetyl-CoA synthetase; Provisional; Region: PRK00174 272630006047 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272630006048 AMP-binding enzyme; Region: AMP-binding; cl15778 272630006049 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630006050 Protein of unknown function, DUF485; Region: DUF485; cl01231 272630006051 Sodium:solute symporter family; Region: SSF; cl00456 272630006052 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272630006053 metabolite-proton symporter; Region: 2A0106; TIGR00883 272630006054 metabolite-proton symporter; Region: 2A0106; TIGR00883 272630006055 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272630006056 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 272630006057 purine monophosphate binding site [chemical binding]; other site 272630006058 dimer interface [polypeptide binding]; other site 272630006059 putative catalytic residues [active] 272630006060 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272630006061 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272630006062 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 272630006063 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 272630006064 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 272630006065 active site residue [active] 272630006066 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 272630006067 active site residue [active] 272630006068 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630006069 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 272630006070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272630006071 ATP binding site [chemical binding]; other site 272630006072 Mg++ binding site [ion binding]; other site 272630006073 motif III; other site 272630006074 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 272630006075 nucleotide binding region [chemical binding]; other site 272630006076 ATP-binding site [chemical binding]; other site 272630006077 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 272630006078 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 272630006079 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630006080 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272630006081 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 272630006082 Mg2+ binding site [ion binding]; other site 272630006083 G-X-G motif; other site 272630006084 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 272630006085 anchoring element; other site 272630006086 dimer interface [polypeptide binding]; other site 272630006087 ATP binding site [chemical binding]; other site 272630006088 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 272630006089 active site 272630006090 putative metal-binding site [ion binding]; other site 272630006091 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272630006092 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 272630006093 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630006094 Coenzyme A binding pocket [chemical binding]; other site 272630006095 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272630006096 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272630006097 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 272630006098 Domain of unknown function (DUF336); Region: DUF336; cl01249 272630006099 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 272630006100 dimerization interface [polypeptide binding]; other site 272630006101 putative DNA binding site [nucleotide binding]; other site 272630006102 putative Zn2+ binding site [ion binding]; other site 272630006103 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 272630006104 catalytic residues [active] 272630006105 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272630006106 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 272630006107 catalytic residues [active] 272630006108 Cytochrome c; Region: Cytochrom_C; cl11414 272630006109 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 272630006110 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 272630006111 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 272630006112 Cytochrome c [Energy production and conversion]; Region: COG3258 272630006113 Cytochrome c [Energy production and conversion]; Region: COG3258 272630006114 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 272630006115 active site 272630006116 metal binding site [ion binding]; metal-binding site 272630006117 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272630006118 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 272630006119 Moco binding site; other site 272630006120 metal coordination site [ion binding]; other site 272630006121 dimerization interface [polypeptide binding]; other site 272630006122 Cytochrome c; Region: Cytochrom_C; cl11414 272630006123 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630006124 DsrE/DsrF-like family; Region: DrsE; cl00672 272630006125 DsrE/DsrF-like family; Region: DrsE; cl00672 272630006126 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272630006127 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 272630006128 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 272630006129 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 272630006130 catalytic residues [active] 272630006131 secreted effector protein PipB2; Provisional; Region: PRK15196 272630006132 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630006133 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630006134 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630006135 Cytochrome c [Energy production and conversion]; Region: COG3258 272630006136 Cytochrome c; Region: Cytochrom_C; cl11414 272630006137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630006138 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630006139 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272630006140 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630006141 catalytic residues [active] 272630006142 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 272630006143 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 272630006144 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 272630006145 DsbD alpha interface [polypeptide binding]; other site 272630006146 catalytic residues [active] 272630006147 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 272630006148 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 272630006149 active site 272630006150 phosphorylation site [posttranslational modification] 272630006151 intermolecular recognition site; other site 272630006152 dimerization interface [polypeptide binding]; other site 272630006153 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 272630006154 DNA binding site [nucleotide binding] 272630006155 sensor protein QseC; Provisional; Region: PRK10337 272630006156 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 272630006157 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 272630006158 ATP binding site [chemical binding]; other site 272630006159 Mg2+ binding site [ion binding]; other site 272630006160 G-X-G motif; other site 272630006161 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 272630006162 active site 272630006163 catalytic residue [active] 272630006164 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272630006165 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630006166 Predicted transporter component [General function prediction only]; Region: COG2391 272630006167 Sulphur transport; Region: Sulf_transp; cl01018 272630006168 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 272630006169 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 272630006170 putative Zn2+ binding site [ion binding]; other site 272630006171 putative DNA binding site [nucleotide binding]; other site 272630006172 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272630006173 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630006174 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 272630006175 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 272630006176 putative Mg++ binding site [ion binding]; other site 272630006177 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 272630006178 nucleotide binding region [chemical binding]; other site 272630006179 ATP-binding site [chemical binding]; other site 272630006180 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 272630006181 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 272630006182 tellurium resistance terB-like protein; Region: terB_like; cl11965 272630006183 metal binding site [ion binding]; metal-binding site 272630006184 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 272630006185 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 272630006186 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272630006187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 272630006188 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272630006189 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 272630006190 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 272630006191 metal-binding site [ion binding] 272630006192 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630006193 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630006194 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 272630006195 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 272630006196 DNA binding residues [nucleotide binding] 272630006197 dimer interface [polypeptide binding]; other site 272630006198 putative metal binding site [ion binding]; other site 272630006199 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 272630006200 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630006201 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630006202 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 272630006203 motif II; other site 272630006204 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630006205 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 272630006206 dimerization interface [polypeptide binding]; other site 272630006207 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630006208 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630006209 Protein export membrane protein; Region: SecD_SecF; cl14618 272630006210 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630006211 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006212 High-affinity nickel-transport protein; Region: NicO; cl00964 272630006213 High-affinity nickel-transport protein; Region: NicO; cl00964 272630006214 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 272630006215 putative metal binding site [ion binding]; other site 272630006216 putative homodimer interface [polypeptide binding]; other site 272630006217 putative homotetramer interface [polypeptide binding]; other site 272630006218 putative homodimer-homodimer interface [polypeptide binding]; other site 272630006219 putative allosteric switch controlling residues; other site 272630006220 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 272630006221 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272630006222 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 272630006223 DNA binding residues [nucleotide binding] 272630006224 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 272630006225 metal-binding site [ion binding] 272630006226 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630006227 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 272630006228 metal-binding site [ion binding] 272630006229 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630006230 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630006231 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 272630006232 metal-binding site [ion binding] 272630006233 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 272630006234 metal-binding site [ion binding] 272630006235 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 272630006236 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 272630006237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630006238 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630006239 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 272630006240 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 272630006241 DNA binding residues [nucleotide binding] 272630006242 dimer interface [polypeptide binding]; other site 272630006243 putative metal binding site [ion binding]; other site 272630006244 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 272630006245 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 272630006246 MerT mercuric transport protein; Region: MerT; cl03578 272630006247 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; cl00207 272630006248 mercuric reductase; Region: MerA; TIGR02053 272630006249 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630006250 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630006251 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 272630006252 MPT binding site; other site 272630006253 trimer interface [polypeptide binding]; other site 272630006254 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 272630006255 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272630006256 catalytic residues [active] 272630006257 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630006258 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630006259 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630006260 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630006261 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630006262 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 272630006263 catalytic residues [active] 272630006264 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272630006265 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272630006266 FtsX-like permease family; Region: FtsX; cl15850 272630006267 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272630006268 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272630006269 Walker A/P-loop; other site 272630006270 ATP binding site [chemical binding]; other site 272630006271 Q-loop/lid; other site 272630006272 ABC transporter signature motif; other site 272630006273 Walker B; other site 272630006274 D-loop; other site 272630006275 H-loop/switch region; other site 272630006276 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 272630006277 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 272630006278 dimerization interface [polypeptide binding]; other site 272630006279 putative DNA binding site [nucleotide binding]; other site 272630006280 putative Zn2+ binding site [ion binding]; other site 272630006281 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630006282 active site 272630006283 metal binding site [ion binding]; metal-binding site 272630006284 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630006285 active site 272630006286 metal binding site [ion binding]; metal-binding site 272630006287 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630006288 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630006289 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006290 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 272630006291 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630006292 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; cl00047 272630006293 Helix-turn-helix domains; Region: HTH; cl00088 272630006294 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 272630006295 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 272630006296 MgtC family; Region: MgtC; pfam02308 272630006297 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272630006298 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 272630006299 TPR motif; other site 272630006300 binding surface 272630006301 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 272630006302 S-adenosylmethionine binding site [chemical binding]; other site 272630006303 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 272630006304 Flagellin N-methylase; Region: FliB; cl00497 272630006305 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 272630006306 Integrase core domain; Region: rve; cl01316 272630006307 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 272630006308 AAA domain; Region: AAA_22; pfam13401 272630006309 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 272630006310 TniQ; Region: TniQ; pfam06527 272630006311 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 272630006312 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 272630006313 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 272630006314 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 272630006315 Predicted metal binding domain; Region: Metal_CEHH; pfam14455 272630006316 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 272630006317 E1 N-terminal domain; Region: E1-N; pfam14463 272630006318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006319 RNA polymerase sigma factor; Provisional; Region: PRK12547 272630006320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630006321 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 272630006322 DNA binding residues [nucleotide binding] 272630006323 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 272630006324 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 272630006325 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 272630006326 aspartate aminotransferase; Provisional; Region: PRK05764 272630006327 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 272630006328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630006329 homodimer interface [polypeptide binding]; other site 272630006330 catalytic residue [active] 272630006331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630006332 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 272630006333 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 272630006334 dimer interface [polypeptide binding]; other site 272630006335 phosphorylation site [posttranslational modification] 272630006336 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 272630006337 ATP binding site [chemical binding]; other site 272630006338 Mg2+ binding site [ion binding]; other site 272630006339 G-X-G motif; other site 272630006340 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272630006341 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 272630006342 active site 272630006343 phosphorylation site [posttranslational modification] 272630006344 intermolecular recognition site; other site 272630006345 dimerization interface [polypeptide binding]; other site 272630006346 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 272630006347 DNA binding site [nucleotide binding] 272630006348 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630006349 Helix-turn-helix domains; Region: HTH; cl00088 272630006350 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 272630006351 homodimer interface [polypeptide binding]; other site 272630006352 substrate-cofactor binding pocket; other site 272630006353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630006354 catalytic residue [active] 272630006355 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 272630006356 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 272630006357 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272630006358 MatE; Region: MatE; cl10513 272630006359 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 272630006360 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272630006361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006362 LytB protein; Region: LYTB; cl00507 272630006363 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 272630006364 Homoserine Kinase, type II. Homoserine kinase 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: HomoserineK_II; cd05153 272630006365 Phosphotransferase enzyme family; Region: APH; pfam01636 272630006366 putative active site [active] 272630006367 putative substrate binding site [chemical binding]; other site 272630006368 ATP binding site [chemical binding]; other site 272630006369 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 272630006370 catalytic triad [active] 272630006371 dimer interface [polypeptide binding]; other site 272630006372 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 272630006373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 272630006374 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 272630006375 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272630006376 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 formation of...; Region: AlaRS_core; cd00673 272630006377 motif 1; other site 272630006378 active site 272630006379 motif 2; other site 272630006380 motif 3; other site 272630006381 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272630006382 Helix-turn-helix domains; Region: HTH; cl00088 272630006383 WYL domain; Region: WYL; cl14852 272630006384 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630006385 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272630006386 putative C-terminal domain interface [polypeptide binding]; other site 272630006387 putative GSH binding site (G-site) [chemical binding]; other site 272630006388 putative dimer interface [polypeptide binding]; other site 272630006389 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 272630006390 dimer interface [polypeptide binding]; other site 272630006391 N-terminal domain interface [polypeptide binding]; other site 272630006392 putative substrate binding pocket (H-site) [chemical binding]; other site 272630006393 recombinase A; Provisional; Region: recA; PRK09354 272630006394 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 272630006395 hexamer interface [polypeptide binding]; other site 272630006396 Walker A motif; other site 272630006397 ATP binding site [chemical binding]; other site 272630006398 Walker B motif; other site 272630006399 hypothetical protein; Provisional; Region: PRK13560 272630006400 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 272630006401 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 272630006402 dimer interface [polypeptide binding]; other site 272630006403 phosphorylation site [posttranslational modification] 272630006404 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 272630006405 ATP binding site [chemical binding]; other site 272630006406 Mg2+ binding site [ion binding]; other site 272630006407 G-X-G motif; other site 272630006408 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 272630006409 active site 272630006410 phosphorylation site [posttranslational modification] 272630006411 intermolecular recognition site; other site 272630006412 dimerization interface [polypeptide binding]; other site 272630006413 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 272630006414 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 272630006415 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272630006416 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272630006417 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272630006418 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 272630006419 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630006420 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630006421 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 272630006422 Predicted dehydrogenase [General function prediction only]; Region: COG0579 272630006423 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272630006424 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630006425 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272630006426 Heme exporter protein D (CcmD); Region: CcmD; cl11475 272630006427 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 272630006428 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 272630006429 catalytic residues [active] 272630006430 central insert; other site 272630006431 Cysteine-rich domain; Region: CCG; pfam02754 272630006432 Cysteine-rich domain; Region: CCG; pfam02754 272630006433 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 272630006434 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 272630006435 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 272630006436 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272630006437 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630006438 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 272630006439 23S rRNA interface [nucleotide binding]; other site 272630006440 L3 interface [polypeptide binding]; other site 272630006441 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 272630006442 Uncharacterized conserved protein (DUF2293); Region: DUF2293; cl02373 272630006443 TOBE domain; Region: TOBE_2; cl01440 272630006444 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272630006445 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 272630006446 active site 272630006447 catalytic residues [active] 272630006448 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272630006449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006450 Walker A/P-loop; other site 272630006451 ATP binding site [chemical binding]; other site 272630006452 Q-loop/lid; other site 272630006453 ABC transporter signature motif; other site 272630006454 Walker B; other site 272630006455 D-loop; other site 272630006456 H-loop/switch region; other site 272630006457 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 272630006458 MOFRL family; Region: MOFRL; pfam05161 272630006459 pyruvate kinase; Provisional; Region: PRK06247 272630006460 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; cl09155 272630006461 domain interfaces; other site 272630006462 active site 272630006463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272630006464 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 272630006465 ATP binding site [chemical binding]; other site 272630006466 Mg2+ binding site [ion binding]; other site 272630006467 G-X-G motif; other site 272630006468 response regulator; Provisional; Region: PRK09483 272630006469 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 272630006470 active site 272630006471 phosphorylation site [posttranslational modification] 272630006472 intermolecular recognition site; other site 272630006473 dimerization interface [polypeptide binding]; other site 272630006474 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630006475 DNA binding residues [nucleotide binding] 272630006476 dimerization interface [polypeptide binding]; other site 272630006477 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 272630006478 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 272630006479 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; cl00075 272630006480 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272630006481 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 272630006482 Trp docking motif [polypeptide binding]; other site 272630006483 dimer interface [polypeptide binding]; other site 272630006484 active site 272630006485 small subunit binding site [polypeptide binding]; other site 272630006486 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 272630006487 catalytic triad [active] 272630006488 conserved cis-peptide bond; other site 272630006489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006490 NAD(P) binding site [chemical binding]; other site 272630006491 active site 272630006492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630006493 Helix-turn-helix domains; Region: HTH; cl00088 272630006494 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 272630006495 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272630006496 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630006497 Protein export membrane protein; Region: SecD_SecF; cl14618 272630006498 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 272630006499 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006500 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006501 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 272630006502 Helix-turn-helix domains; Region: HTH; cl00088 272630006503 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272630006504 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 272630006505 non-specific DNA binding site [nucleotide binding]; other site 272630006506 salt bridge; other site 272630006507 sequence-specific DNA binding site [nucleotide binding]; other site 272630006508 Cupin domain; Region: Cupin_2; cl09118 272630006509 methylamine dehydrogenase heavy chain; Region: TTQ_MADH_Hv; TIGR02658 272630006510 DoxX; Region: DoxX; cl00976 272630006511 Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for...; Region: mauD; cd02967 272630006512 catalytic residues [active] 272630006513 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 272630006514 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630006515 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 272630006516 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630006517 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 272630006518 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 272630006519 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272630006520 4Fe-4S binding domain; Region: Fer4_5; pfam12801 272630006521 4Fe-4S binding domain; Region: Fer4; cl02805 272630006522 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 272630006523 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 272630006524 dimer interface [polypeptide binding]; other site 272630006525 catalytic triad [active] 272630006526 peroxidatic and resolving cysteines [active] 272630006527 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 272630006528 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 272630006529 non-specific DNA binding site [nucleotide binding]; other site 272630006530 salt bridge; other site 272630006531 sequence-specific DNA binding site [nucleotide binding]; other site 272630006532 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 272630006533 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 272630006534 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 272630006535 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272630006536 FeS/SAM binding site; other site 272630006537 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272630006538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006539 Family description; Region: UvrD_C_2; cl15862 272630006540 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 272630006541 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 272630006542 putative active site [active] 272630006543 putative metal-binding site [ion binding]; other site 272630006544 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 272630006545 active site 272630006546 GIY-YIG motif/motif A; other site 272630006547 catalytic site [active] 272630006548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006549 Family description; Region: UvrD_C_2; cl15862 272630006550 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 272630006551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006552 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 272630006553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006554 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 272630006555 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 272630006556 active site 272630006557 DNA binding site [nucleotide binding] 272630006558 Int/Topo IB signature motif; other site 272630006559 Domain of unknown function (DUF329); Region: DUF329; cl01144 272630006560 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 272630006561 active site 272630006562 dimer interface [polypeptide binding]; other site 272630006563 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630006564 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 272630006565 N-terminal plug; other site 272630006566 ligand-binding site [chemical binding]; other site 272630006567 CcmB protein; Region: CcmB; cl01016 272630006568 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 272630006569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006570 Walker A/P-loop; other site 272630006571 ATP binding site [chemical binding]; other site 272630006572 Q-loop/lid; other site 272630006573 ABC transporter signature motif; other site 272630006574 Walker B; other site 272630006575 D-loop; other site 272630006576 H-loop/switch region; other site 272630006577 aconitate hydratase; Validated; Region: PRK09277 272630006578 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 272630006579 substrate binding site [chemical binding]; other site 272630006580 ligand binding site [chemical binding]; other site 272630006581 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 272630006582 substrate binding site [chemical binding]; other site 272630006583 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272630006584 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 272630006585 maleylacetoacetate isomerase; Region: maiA; TIGR01262 272630006586 C-terminal domain interface [polypeptide binding]; other site 272630006587 GSH binding site (G-site) [chemical binding]; other site 272630006588 putative dimer interface [polypeptide binding]; other site 272630006589 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272630006590 dimer interface [polypeptide binding]; other site 272630006591 N-terminal domain interface [polypeptide binding]; other site 272630006592 substrate binding pocket (H-site) [chemical binding]; other site 272630006593 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272630006594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630006595 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630006596 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630006597 dimer interface [polypeptide binding]; other site 272630006598 putative CheW interface [polypeptide binding]; other site 272630006599 Quinolinate synthetase A protein; Region: NadA; cl00420 272630006600 L-aspartate oxidase; Provisional; Region: PRK07512 272630006601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006602 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272630006603 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 272630006604 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 272630006605 dimerization interface [polypeptide binding]; other site 272630006606 active site 272630006607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630006608 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630006609 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 272630006610 Protein of unknown function (DUF971); Region: DUF971; cl01414 272630006611 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 272630006612 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 272630006613 FeS/SAM binding site; other site 272630006614 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272630006615 GSCFA family; Region: GSCFA; pfam08885 272630006616 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272630006617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006619 phosphoserine phosphatase SerB; Region: serB; TIGR00338 272630006620 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630006621 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272630006622 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630006623 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 272630006624 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 272630006625 protein binding site [polypeptide binding]; other site 272630006626 HflC protein; Region: hflC; TIGR01932 272630006627 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 272630006628 HflK protein; Region: hflK; TIGR01933 272630006629 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 272630006630 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 272630006631 folate binding site [chemical binding]; other site 272630006632 NADP+ binding site [chemical binding]; other site 272630006633 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 272630006634 dimerization interface [polypeptide binding]; other site 272630006635 active site 272630006636 CAAX protease self-immunity; Region: Abi; cl00558 272630006637 Stringent starvation protein B; Region: SspB; cl01120 272630006638 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272630006639 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272630006640 Class II fumarases; Region: Fumarase_classII; cd01362 272630006641 active site 272630006642 tetramer interface [polypeptide binding]; other site 272630006643 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 272630006644 Ribbon-helix-helix domain; Region: RHH_4; cl01775 272630006645 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 272630006646 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 272630006647 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272630006648 intersubunit interface [polypeptide binding]; other site 272630006649 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272630006650 pyridoxamine kinase; Validated; Region: PRK05756 272630006651 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 272630006652 dimer interface [polypeptide binding]; other site 272630006653 pyridoxal binding site [chemical binding]; other site 272630006654 ATP binding site [chemical binding]; other site 272630006655 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272630006656 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272630006657 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 272630006658 2-isopropylmalate synthase; Validated; Region: PRK00915 272630006659 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 272630006660 active site 272630006661 catalytic residues [active] 272630006662 metal binding site [ion binding]; metal-binding site 272630006663 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272630006664 Dehydratase family; Region: ILVD_EDD; cl00340 272630006665 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 272630006666 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 272630006667 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 272630006668 active site 272630006669 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 catalyze...; Region: LT_GEWL; cd00254 272630006670 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630006671 catalytic residue [active] 272630006672 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 272630006673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630006674 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 272630006675 S-adenosylmethionine binding site [chemical binding]; other site 272630006676 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272630006677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006678 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272630006679 YcaO-like family; Region: YcaO; pfam02624 272630006680 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 272630006681 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 272630006682 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272630006683 AP (apurinic/apyrimidinic) site pocket; other site 272630006684 DNA interaction; other site 272630006685 Metal-binding active site; metal-binding site 272630006686 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272630006687 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 272630006688 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 272630006689 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 272630006690 putative uracil binding site [chemical binding]; other site 272630006691 putative active site [active] 272630006692 Predicted integral membrane protein [Function unknown]; Region: COG0392 272630006693 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272630006694 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272630006695 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 272630006696 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 272630006697 dimer interface [polypeptide binding]; other site 272630006698 phosphorylation site [posttranslational modification] 272630006699 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 272630006700 ATP binding site [chemical binding]; other site 272630006701 Mg2+ binding site [ion binding]; other site 272630006702 G-X-G motif; other site 272630006703 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 272630006704 metal-binding site [ion binding] 272630006705 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630006706 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 272630006707 metal-binding site [ion binding] 272630006708 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630006709 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630006710 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 272630006711 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 272630006712 DNA binding residues [nucleotide binding] 272630006713 dimer interface [polypeptide binding]; other site 272630006714 copper binding site [ion binding]; other site 272630006715 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272630006716 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272630006717 metal binding site [ion binding]; metal-binding site 272630006718 putative dimer interface [polypeptide binding]; other site 272630006719 OpgC protein; Region: OpgC_C; cl00792 272630006720 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 272630006721 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 272630006722 RNA binding site [nucleotide binding]; other site 272630006723 active site 272630006724 Ribosome-binding factor A; Region: RBFA; cl00542 272630006725 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 272630006726 translation initiation factor IF-2; Region: IF-2; TIGR00487 272630006727 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272630006728 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 272630006729 G1 box; other site 272630006730 putative GEF interaction site [polypeptide binding]; other site 272630006731 GTP/Mg2+ binding site [chemical binding]; other site 272630006732 Switch I region; other site 272630006733 G2 box; other site 272630006734 G3 box; other site 272630006735 Switch II region; other site 272630006736 G4 box; other site 272630006737 G5 box; other site 272630006738 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 272630006739 Translation-initiation factor 2; Region: IF-2; pfam11987 272630006740 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 272630006741 hypothetical protein; Provisional; Region: PRK09190 272630006742 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 272630006743 putative RNA binding cleft [nucleotide binding]; other site 272630006744 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 272630006745 NusA N-terminal domain; Region: NusA_N; pfam08529 272630006746 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 272630006747 RNA binding site [nucleotide binding]; other site 272630006748 homodimer interface [polypeptide binding]; other site 272630006749 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 272630006750 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 272630006751 G-X-X-G motif; other site 272630006752 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 272630006753 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272630006754 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 272630006755 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 272630006756 Sm1 motif; other site 272630006757 D1 - D2 interaction site; other site 272630006758 D3 - B interaction site; other site 272630006759 Hfq - Hfq interaction site; other site 272630006760 RNA binding pocket [nucleotide binding]; other site 272630006761 Sm2 motif; other site 272630006762 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 272630006763 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 272630006764 trimer interface [polypeptide binding]; other site 272630006765 active site 272630006766 substrate binding site [chemical binding]; other site 272630006767 CoA binding site [chemical binding]; other site 272630006768 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 272630006769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006770 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272630006771 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272630006772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630006773 Coenzyme A binding pocket [chemical binding]; other site 272630006774 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630006775 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272630006776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006777 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272630006778 Helix-turn-helix domains; Region: HTH; cl00088 272630006779 WHG domain; Region: WHG; pfam13305 272630006780 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 272630006781 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 272630006782 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 272630006783 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 272630006784 catalytic site [active] 272630006785 active site 272630006786 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 272630006787 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 272630006788 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 272630006789 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272630006790 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 272630006791 active site 272630006792 catalytic site [active] 272630006793 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272630006794 active site 272630006795 catalytic site [active] 272630006796 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 272630006797 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 272630006798 active site 272630006799 homodimer interface [polypeptide binding]; other site 272630006800 catalytic site [active] 272630006801 acceptor binding site [chemical binding]; other site 272630006802 potential frameshift: common BLAST hit: gi|218530891|ref|YP_002421707.1| trehalose synthase 272630006803 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272630006804 active site 272630006805 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272630006806 active site 272630006807 catalytic site [active] 272630006808 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 272630006809 glycogen branching enzyme; Provisional; Region: PRK05402 272630006810 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 272630006811 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 272630006812 active site 272630006813 catalytic site [active] 272630006814 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272630006815 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 272630006816 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 272630006817 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272630006818 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272630006819 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630006820 minor groove reading motif; other site 272630006821 helix-hairpin-helix signature motif; other site 272630006822 substrate binding pocket [chemical binding]; other site 272630006823 active site 272630006824 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272630006825 cytoskeletal protein RodZ; Provisional; Region: PRK10856 272630006826 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272630006827 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272630006828 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272630006829 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272630006830 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 272630006831 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272630006832 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 272630006833 FeS/SAM binding site; other site 272630006834 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272630006835 active site 272630006836 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272630006837 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272630006838 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 272630006839 P loop; other site 272630006840 GTP binding site [chemical binding]; other site 272630006841 Intracellular septation protein A; Region: IspA; cl01098 272630006842 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 272630006843 phytoene desaturase; Region: crtI_fam; TIGR02734 272630006844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006845 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272630006846 substrate binding pocket [chemical binding]; other site 272630006847 chain length determination region; other site 272630006848 substrate-Mg2+ binding site; other site 272630006849 catalytic residues [active] 272630006850 aspartate-rich region 1; other site 272630006851 active site lid residues [active] 272630006852 aspartate-rich region 2; other site 272630006853 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; cl15754 272630006854 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 272630006855 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 272630006856 putative NAD(P) binding site [chemical binding]; other site 272630006857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630006858 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 272630006859 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 272630006860 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 272630006861 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 272630006862 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 272630006863 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 272630006864 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 272630006865 subunit M interface; other site 272630006866 subunit H interface; other site 272630006867 quinone binding site; other site 272630006868 bacteriopheophytin binding site; other site 272630006869 bacteriochlorophyll binding site; other site 272630006870 cytochrome C subunit interface; other site 272630006871 Fe binding site [ion binding]; other site 272630006872 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 272630006873 subunit H interface; other site 272630006874 subunit L interface; other site 272630006875 bacteriopheophytin binding site; other site 272630006876 carotenoid binding site; other site 272630006877 bacteriochlorophyll binding site; other site 272630006878 cytochrome C interface; other site 272630006879 quinone binding site; other site 272630006880 Fe binding site [ion binding]; other site 272630006881 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 272630006882 subunit interface [polypeptide binding]; other site 272630006883 Heme binding sites [chemical binding]; other site 272630006884 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 272630006885 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630006886 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 272630006887 Walker A/P-loop; other site 272630006888 ATP binding site [chemical binding]; other site 272630006889 Q-loop/lid; other site 272630006890 ABC transporter signature motif; other site 272630006891 Walker B; other site 272630006892 D-loop; other site 272630006893 H-loop/switch region; other site 272630006894 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272630006895 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006896 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630006897 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 272630006898 TPR repeat; Region: TPR_11; pfam13414 272630006899 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 272630006900 binding surface 272630006901 TPR motif; other site 272630006902 TPR repeat; Region: TPR_11; pfam13414 272630006903 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630006904 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630006905 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630006906 pyruvate kinase; Provisional; Region: PRK06247 272630006907 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; cl09155 272630006908 domain interfaces; other site 272630006909 active site 272630006910 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 272630006911 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 272630006912 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 272630006913 MOFRL family; Region: MOFRL; pfam05161 272630006914 N-formylglutamate amidohydrolase; Region: FGase; cl01522 272630006915 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 272630006916 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 272630006917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 272630006918 Peptidase M15; Region: Peptidase_M15_3; cl01194 272630006919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272630006920 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630006921 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630006922 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630006923 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 272630006924 active site 272630006925 phosphorylation site [posttranslational modification] 272630006926 intermolecular recognition site; other site 272630006927 dimerization interface [polypeptide binding]; other site 272630006928 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 272630006929 Walker A motif; other site 272630006930 ATP binding site [chemical binding]; other site 272630006931 Walker B motif; other site 272630006932 arginine finger; other site 272630006933 Helix-turn-helix domains; Region: HTH; cl00088 272630006934 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 272630006935 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 272630006936 active site 272630006937 Zn binding site [ion binding]; other site 272630006938 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 272630006939 Fic/DOC family; Region: Fic; cl00960 272630006940 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630006941 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 272630006942 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 272630006943 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 272630006944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630006945 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 272630006946 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 272630006947 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 272630006948 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272630006949 DHH family; Region: DHH; pfam01368 272630006950 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630006951 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 272630006952 ligand binding site [chemical binding]; other site 272630006953 flexible hinge region; other site 272630006954 Helix-turn-helix domains; Region: HTH; cl00088 272630006955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630006956 Histidine kinase; Region: HisKA_2; cl06527 272630006957 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 272630006958 Surface antigen; Region: Bac_surface_Ag; cl03097 272630006959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 272630006960 Family of unknown function (DUF490); Region: DUF490; pfam04357 272630006961 cyanate hydratase; Validated; Region: PRK02866 272630006962 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 272630006963 oligomer interface [polypeptide binding]; other site 272630006964 active site 272630006965 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 272630006966 PAS domain S-box; Region: sensory_box; TIGR00229 272630006967 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630006968 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 272630006969 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 272630006970 Walker A motif; other site 272630006971 ATP binding site [chemical binding]; other site 272630006972 Walker B motif; other site 272630006973 arginine finger; other site 272630006974 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630006975 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630006976 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 272630006977 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630006978 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630006979 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 272630006980 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 272630006981 dimerization interface [polypeptide binding]; other site 272630006982 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 272630006983 PAS fold; Region: PAS_7; pfam12860 272630006984 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 272630006985 PAS fold; Region: PAS_7; pfam12860 272630006986 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630006987 metal binding site [ion binding]; metal-binding site 272630006988 active site 272630006989 I-site; other site 272630006990 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 272630006991 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272630006992 dinuclear metal binding motif [ion binding]; other site 272630006993 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; cl15754 272630006994 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 272630006995 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 272630006996 Cl- selectivity filter; other site 272630006997 Cl- binding residues [ion binding]; other site 272630006998 pore gating glutamate residue; other site 272630006999 dimer interface [polypeptide binding]; other site 272630007000 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 272630007001 NeuB family; Region: NeuB; cl00496 272630007002 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 272630007003 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272630007004 enolase; Provisional; Region: eno; PRK00077 272630007005 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 272630007006 dimer interface [polypeptide binding]; other site 272630007007 metal binding site [ion binding]; metal-binding site 272630007008 substrate binding pocket [chemical binding]; other site 272630007009 Septum formation initiator; Region: DivIC; cl11433 272630007010 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 272630007011 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 272630007012 tetramer interface [polypeptide binding]; other site 272630007013 TPP-binding site [chemical binding]; other site 272630007014 heterodimer interface [polypeptide binding]; other site 272630007015 phosphorylation loop region [posttranslational modification] 272630007016 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 272630007017 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 272630007018 E3 interaction surface; other site 272630007019 lipoyl attachment site [posttranslational modification]; other site 272630007020 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 272630007021 alpha subunit interface [polypeptide binding]; other site 272630007022 TPP binding site [chemical binding]; other site 272630007023 heterodimer interface [polypeptide binding]; other site 272630007024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630007025 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 272630007026 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 272630007027 E3 interaction surface; other site 272630007028 lipoyl attachment site [posttranslational modification]; other site 272630007029 e3 binding domain; Region: E3_binding; pfam02817 272630007030 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272630007031 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 272630007032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630007034 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630007035 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630007036 potential frameshift: common BLAST hit: gi|163852215|ref|YP_001640258.1| L-sorbosone dehydrogenase 272630007037 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 272630007038 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272630007039 lipoyl synthase; Provisional; Region: PRK05481 272630007040 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 272630007041 FeS/SAM binding site; other site 272630007042 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 272630007043 putative coenzyme Q binding site [chemical binding]; other site 272630007044 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272630007045 Helix-turn-helix domains; Region: HTH; cl00088 272630007046 ornithine cyclodeaminase; Validated; Region: PRK07589 272630007047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007048 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272630007049 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 272630007050 dimer interface [polypeptide binding]; other site 272630007051 active site 272630007052 CoA binding pocket [chemical binding]; other site 272630007053 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630007054 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272630007055 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 272630007056 dimer interface [polypeptide binding]; other site 272630007057 active site 272630007058 CoA binding pocket [chemical binding]; other site 272630007059 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 272630007060 classical (c) SDRs; Region: SDR_c; cd05233 272630007061 NAD(P) binding site [chemical binding]; other site 272630007062 active site 272630007063 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 272630007064 [2Fe-2S] cluster binding site [ion binding]; other site 272630007065 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 272630007066 alpha subunit interface [polypeptide binding]; other site 272630007067 active site 272630007068 substrate binding site [chemical binding]; other site 272630007069 Fe binding site [ion binding]; other site 272630007070 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 272630007071 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 272630007072 putative trimer interface [polypeptide binding]; other site 272630007073 putative CoA binding site [chemical binding]; other site 272630007074 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 272630007075 binding surface 272630007076 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272630007077 TPR motif; other site 272630007078 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 272630007079 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 272630007080 binding surface 272630007081 TPR motif; other site 272630007082 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 272630007083 TPR motif; other site 272630007084 binding surface 272630007085 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 272630007086 Low molecular weight phosphatase family; Region: LMWPc; cl00105 272630007087 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272630007088 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 272630007089 Walker A/P-loop; other site 272630007090 ATP binding site [chemical binding]; other site 272630007091 Q-loop/lid; other site 272630007092 ABC transporter signature motif; other site 272630007093 Walker B; other site 272630007094 D-loop; other site 272630007095 H-loop/switch region; other site 272630007096 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630007097 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272630007098 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; cl00159 272630007099 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630007100 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272630007101 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272630007102 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630007103 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630007104 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630007105 Competence-damaged protein; Region: CinA; cl00666 272630007106 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272630007107 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 272630007108 substrate binding site; other site 272630007109 dimer interface; other site 272630007110 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 272630007111 homotrimer interaction site [polypeptide binding]; other site 272630007112 zinc binding site [ion binding]; other site 272630007113 CDP-binding sites; other site 272630007114 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 272630007115 FMN binding site [chemical binding]; other site 272630007116 active site 272630007117 catalytic residues [active] 272630007118 substrate binding site [chemical binding]; other site 272630007119 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272630007120 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 272630007121 dimer interface [polypeptide binding]; other site 272630007122 phosphorylation site [posttranslational modification] 272630007123 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 272630007124 ATP binding site [chemical binding]; other site 272630007125 Mg2+ binding site [ion binding]; other site 272630007126 G-X-G motif; other site 272630007127 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 272630007128 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 272630007129 active site 272630007130 phosphorylation site [posttranslational modification] 272630007131 intermolecular recognition site; other site 272630007132 dimerization interface [polypeptide binding]; other site 272630007133 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 272630007134 Walker A motif; other site 272630007135 ATP binding site [chemical binding]; other site 272630007136 Walker B motif; other site 272630007137 arginine finger; other site 272630007138 Helix-turn-helix domains; Region: HTH; cl00088 272630007139 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 272630007140 nucleotide binding region [chemical binding]; other site 272630007141 ATP-binding site [chemical binding]; other site 272630007142 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272630007143 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 272630007144 dimerization interface [polypeptide binding]; other site 272630007145 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 272630007146 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 272630007147 dimer interface [polypeptide binding]; other site 272630007148 phosphorylation site [posttranslational modification] 272630007149 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 272630007150 ATP binding site [chemical binding]; other site 272630007151 Mg2+ binding site [ion binding]; other site 272630007152 G-X-G motif; other site 272630007153 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630007154 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 272630007155 active site 272630007156 phosphorylation site [posttranslational modification] 272630007157 intermolecular recognition site; other site 272630007158 dimerization interface [polypeptide binding]; other site 272630007159 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 272630007160 Walker A motif; other site 272630007161 ATP binding site [chemical binding]; other site 272630007162 Walker B motif; other site 272630007163 arginine finger; other site 272630007164 Helix-turn-helix domains; Region: HTH; cl00088 272630007165 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 272630007166 Sm1 motif; other site 272630007167 intra - hexamer interaction site; other site 272630007168 inter - hexamer interaction site [polypeptide binding]; other site 272630007169 nucleotide binding pocket [chemical binding]; other site 272630007170 Sm2 motif; other site 272630007171 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272630007172 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 272630007173 HflX GTPase family; Region: HflX; cd01878 272630007174 G1 box; other site 272630007175 GTP/Mg2+ binding site [chemical binding]; other site 272630007176 Switch I region; other site 272630007177 G2 box; other site 272630007178 G3 box; other site 272630007179 Switch II region; other site 272630007180 G4 box; other site 272630007181 G5 box; other site 272630007182 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 272630007183 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630007184 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630007185 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 272630007186 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 272630007187 active site clefts [active] 272630007188 zinc binding site [ion binding]; other site 272630007189 dimer interface [polypeptide binding]; other site 272630007190 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630007191 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630007192 Protein export membrane protein; Region: SecD_SecF; cl14618 272630007193 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630007194 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630007195 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630007196 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630007197 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 272630007198 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272630007199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007200 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 272630007201 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 272630007202 dimerization interface [polypeptide binding]; other site 272630007203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630007204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630007205 dimer interface [polypeptide binding]; other site 272630007206 putative CheW interface [polypeptide binding]; other site 272630007207 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 272630007208 putative binding surface; other site 272630007209 active site 272630007210 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272630007211 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 272630007212 ATP binding site [chemical binding]; other site 272630007213 Mg2+ binding site [ion binding]; other site 272630007214 G-X-G motif; other site 272630007215 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007216 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 272630007217 active site 272630007218 phosphorylation site [posttranslational modification] 272630007219 intermolecular recognition site; other site 272630007220 dimerization interface [polypeptide binding]; other site 272630007221 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272630007222 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 272630007223 active site 272630007224 phosphorylation site [posttranslational modification] 272630007225 intermolecular recognition site; other site 272630007226 dimerization interface [polypeptide binding]; other site 272630007227 CheB methylesterase; Region: CheB_methylest; pfam01339 272630007228 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007229 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 272630007230 active site 272630007231 phosphorylation site [posttranslational modification] 272630007232 intermolecular recognition site; other site 272630007233 dimerization interface [polypeptide binding]; other site 272630007234 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630007235 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 272630007236 dimer interface [polypeptide binding]; other site 272630007237 phosphorylation site [posttranslational modification] 272630007238 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 272630007239 ATP binding site [chemical binding]; other site 272630007240 Mg2+ binding site [ion binding]; other site 272630007241 G-X-G motif; other site 272630007242 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007243 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 272630007244 active site 272630007245 phosphorylation site [posttranslational modification] 272630007246 intermolecular recognition site; other site 272630007247 dimerization interface [polypeptide binding]; other site 272630007248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272630007249 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 272630007250 dimer interface [polypeptide binding]; other site 272630007251 phosphorylation site [posttranslational modification] 272630007252 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 272630007253 ATP binding site [chemical binding]; other site 272630007254 Mg2+ binding site [ion binding]; other site 272630007255 G-X-G motif; other site 272630007256 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007257 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 272630007258 active site 272630007259 phosphorylation site [posttranslational modification] 272630007260 intermolecular recognition site; other site 272630007261 dimerization interface [polypeptide binding]; other site 272630007262 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 272630007263 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 272630007264 structural tetrad; other site 272630007265 Cytochrome c; Region: Cytochrom_C; cl11414 272630007266 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 272630007267 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272630007268 dimer interface [polypeptide binding]; other site 272630007269 putative functional site; other site 272630007270 putative MPT binding site; other site 272630007271 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 272630007272 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 272630007273 dimer interface [polypeptide binding]; other site 272630007274 putative functional site; other site 272630007275 putative MPT binding site; other site 272630007276 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 272630007277 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 272630007278 Walker A motif; other site 272630007279 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272630007280 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 272630007281 dimer interface [polypeptide binding]; other site 272630007282 putative functional site; other site 272630007283 putative MPT binding site; other site 272630007284 Helix-turn-helix domains; Region: HTH; cl00088 272630007285 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 272630007286 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 272630007287 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 272630007288 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 272630007289 Walker A/P-loop; other site 272630007290 ATP binding site [chemical binding]; other site 272630007291 Q-loop/lid; other site 272630007292 ABC transporter signature motif; other site 272630007293 Walker B; other site 272630007294 D-loop; other site 272630007295 H-loop/switch region; other site 272630007296 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 272630007297 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 272630007298 dimerization interface [polypeptide binding]; other site 272630007299 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272630007300 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 272630007301 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 272630007302 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 272630007303 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 272630007304 Ligand binding site; other site 272630007305 DXD motif; other site 272630007306 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 272630007307 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 272630007308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630007309 catalytic residue [active] 272630007310 TspO/MBR family; Region: TspO_MBR; cl01379 272630007311 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007312 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 272630007313 active site 272630007314 phosphorylation site [posttranslational modification] 272630007315 intermolecular recognition site; other site 272630007316 dimerization interface [polypeptide binding]; other site 272630007317 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630007318 active site 272630007319 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 272630007320 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630007321 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 272630007322 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 272630007323 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 272630007324 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272630007325 Walker A/P-loop; other site 272630007326 ATP binding site [chemical binding]; other site 272630007327 Q-loop/lid; other site 272630007328 ABC transporter signature motif; other site 272630007329 Walker B; other site 272630007330 D-loop; other site 272630007331 H-loop/switch region; other site 272630007332 FtsX-like permease family; Region: FtsX; cl15850 272630007333 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 272630007334 putative active site [active] 272630007335 Response regulator receiver domain; Region: Response_reg; pfam00072 272630007336 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 272630007337 active site 272630007338 phosphorylation site [posttranslational modification] 272630007339 intermolecular recognition site; other site 272630007340 dimerization interface [polypeptide binding]; other site 272630007341 gamma-glutamyl kinase; Provisional; Region: PRK05429 272630007342 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 272630007343 nucleotide binding site [chemical binding]; other site 272630007344 homotetrameric interface [polypeptide binding]; other site 272630007345 putative phosphate binding site [ion binding]; other site 272630007346 putative allosteric binding site; other site 272630007347 PUA domain; Region: PUA; cl00607 272630007348 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272630007349 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272630007350 putative catalytic cysteine [active] 272630007351 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 272630007352 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272630007353 active site 272630007354 (T/H)XGH motif; other site 272630007355 Oligomerisation domain; Region: Oligomerisation; cl00519 272630007356 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 272630007357 Predicted transcriptional regulators [Transcription]; Region: COG1510 272630007358 Helix-turn-helix domains; Region: HTH; cl00088 272630007359 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272630007360 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272630007361 active site 272630007362 catalytic residues [active] 272630007363 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 272630007364 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630007365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630007366 Walker A/P-loop; other site 272630007367 ATP binding site [chemical binding]; other site 272630007368 Q-loop/lid; other site 272630007369 ABC transporter signature motif; other site 272630007370 Walker B; other site 272630007371 D-loop; other site 272630007372 H-loop/switch region; other site 272630007373 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 272630007374 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272630007375 metal binding site [ion binding]; metal-binding site 272630007376 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272630007377 MoaE interaction surface [polypeptide binding]; other site 272630007378 MoeB interaction surface [polypeptide binding]; other site 272630007379 thiocarboxylated glycine; other site 272630007380 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272630007381 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272630007382 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272630007383 GIY-YIG motif/motif A; other site 272630007384 active site 272630007385 catalytic site [active] 272630007386 putative DNA binding site [nucleotide binding]; other site 272630007387 metal binding site [ion binding]; metal-binding site 272630007388 UvrB/uvrC motif; Region: UVR; pfam02151 272630007389 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272630007390 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 272630007391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630007392 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630007393 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 272630007394 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630007395 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272630007396 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272630007397 Uncharacterized conserved protein [Function unknown]; Region: COG1565 272630007398 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 272630007399 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 272630007400 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 272630007401 MgtC family; Region: MgtC; pfam02308 272630007402 phosphoglucomutase; Region: PLN02307 272630007403 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 272630007404 active site 272630007405 substrate binding site [chemical binding]; other site 272630007406 metal binding site [ion binding]; metal-binding site 272630007407 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272630007408 pyruvate phosphate dikinase; Provisional; Region: PRK09279 272630007409 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 272630007410 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272630007411 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; cl09155 272630007412 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630007413 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 272630007414 dimer interface [polypeptide binding]; other site 272630007415 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630007416 metal binding site [ion binding]; metal-binding site 272630007417 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 272630007418 ligand binding site [chemical binding]; other site 272630007419 flexible hinge region; other site 272630007420 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630007421 Helix-turn-helix domains; Region: HTH; cl00088 272630007422 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 272630007423 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272630007424 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630007425 RMQ12794 Microarray probe; Evidence 7 : Gene remnant 272630007426 RMQ12793 Microarray probe; Evidence 7 : Gene remnant 272630007427 two-component response regulator; Provisional; Region: PRK09191 272630007428 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630007429 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 272630007430 active site 272630007431 phosphorylation site [posttranslational modification] 272630007432 intermolecular recognition site; other site 272630007433 dimerization interface [polypeptide binding]; other site 272630007434 RMQ08196 Microaray probe; Evidence 7 : Gene remnant 272630007435 RMQ08197 Microarray probe; Evidence 7 : Gene remnant 272630007436 RMQ08196 Microarray probe; Evidence 7 : Gene remnant 272630007437 Flagellin N-methylase; Region: FliB; cl00497 272630007438 aminotransferase; Provisional; Region: PRK06105 272630007439 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 272630007440 inhibitor-cofactor binding pocket; inhibition site 272630007441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630007442 catalytic residue [active] 272630007443 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272630007444 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630007445 putative active site [active] 272630007446 putative metal binding site [ion binding]; other site 272630007447 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630007448 AlkA N-terminal domain; Region: AlkA_N; cl05528 272630007449 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 272630007450 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630007451 minor groove reading motif; other site 272630007452 helix-hairpin-helix signature motif; other site 272630007453 substrate binding pocket [chemical binding]; other site 272630007454 active site 272630007455 ribonuclease D; Region: rnd; TIGR01388 272630007456 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 272630007457 catalytic site [active] 272630007458 putative active site [active] 272630007459 putative substrate binding site [chemical binding]; other site 272630007460 HRDC domain; Region: HRDC; cl02578 272630007461 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272630007462 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630007463 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272630007464 AsmA-like C-terminal region; Region: AsmA_2; cl15864 272630007465 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630007466 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 272630007467 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272630007468 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630007469 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630007470 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 272630007471 N-terminal plug; other site 272630007472 ligand-binding site [chemical binding]; other site 272630007473 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 272630007474 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272630007475 Walker A/P-loop; other site 272630007476 ATP binding site [chemical binding]; other site 272630007477 Q-loop/lid; other site 272630007478 ABC transporter signature motif; other site 272630007479 Walker B; other site 272630007480 D-loop; other site 272630007481 H-loop/switch region; other site 272630007482 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272630007483 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272630007484 ABC-ATPase subunit interface; other site 272630007485 dimer interface [polypeptide binding]; other site 272630007486 putative PBP binding regions; other site 272630007487 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 272630007488 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272630007489 intersubunit interface [polypeptide binding]; other site 272630007490 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 272630007491 putative active site [active] 272630007492 GMP synthase; Reviewed; Region: guaA; PRK00074 272630007493 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272630007494 AMP/PPi binding site [chemical binding]; other site 272630007495 candidate oxyanion hole; other site 272630007496 catalytic triad [active] 272630007497 potential glutamine specificity residues [chemical binding]; other site 272630007498 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 272630007499 ATP Binding subdomain [chemical binding]; other site 272630007500 Ligand Binding sites [chemical binding]; other site 272630007501 Dimerization subdomain; other site 272630007502 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272630007503 active site 272630007504 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630007505 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 272630007506 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; cl15754 272630007507 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 272630007508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007509 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272630007510 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272630007511 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; cl09108 272630007512 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 key...; Region: CBS_pair_IMPDH; cd04601 272630007513 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 the guanine...; Region: IMPDH; cd00381 272630007514 active site 272630007515 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272630007516 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 272630007517 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 272630007518 active site 272630007519 homodimer interface [polypeptide binding]; other site 272630007520 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272630007521 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272630007522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272630007523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272630007524 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 272630007525 putative active site [active] 272630007526 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272630007527 FAD binding domain; Region: FAD_binding_4; pfam01565 272630007528 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272630007529 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272630007530 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272630007531 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630007532 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272630007533 Cell division protein FtsQ; Region: FtsQ; pfam03799 272630007534 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272630007535 Cell division protein FtsA; Region: FtsA; cl11496 272630007536 Cell division protein FtsA; Region: FtsA; cl11496 272630007537 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 272630007538 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 272630007539 nucleotide binding site [chemical binding]; other site 272630007540 SulA interaction site; other site 272630007541 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 272630007542 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 272630007543 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 272630007544 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 272630007545 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 272630007546 active site 272630007547 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272630007548 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 272630007549 Walker A/P-loop; other site 272630007550 ATP binding site [chemical binding]; other site 272630007551 Q-loop/lid; other site 272630007552 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 272630007553 ABC transporter signature motif; other site 272630007554 Walker B; other site 272630007555 D-loop; other site 272630007556 H-loop/switch region; other site 272630007557 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272630007558 yiaA/B two helix domain; Region: YiaAB; cl01759 272630007559 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 272630007560 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 272630007561 putative molybdopterin cofactor binding site [chemical binding]; other site 272630007562 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 272630007563 putative molybdopterin cofactor binding site; other site 272630007564 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272630007565 chaperone protein DnaJ; Provisional; Region: PRK10767 272630007566 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 272630007567 HSP70 interaction site [polypeptide binding]; other site 272630007568 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 272630007569 substrate binding site [polypeptide binding]; other site 272630007570 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272630007571 Zn binding sites [ion binding]; other site 272630007572 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272630007573 dimer interface [polypeptide binding]; other site 272630007574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007575 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 272630007576 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272630007577 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272630007578 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272630007579 intersubunit interface [polypeptide binding]; other site 272630007580 active site 272630007581 catalytic residue [active] 272630007582 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272630007583 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 272630007584 active site 272630007585 catalytic motif [active] 272630007586 Zn binding site [ion binding]; other site 272630007587 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 272630007588 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 272630007589 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272630007590 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272630007591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 272630007592 putative acyl-acceptor binding pocket; other site 272630007593 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 272630007594 putative active site [active] 272630007595 putative metal binding site [ion binding]; other site 272630007596 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630007597 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630007598 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 272630007599 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 272630007600 active site 272630007601 phosphorylation site [posttranslational modification] 272630007602 intermolecular recognition site; other site 272630007603 dimerization interface [polypeptide binding]; other site 272630007604 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 protein; Region: CSP_CDS; cd04458 272630007605 DNA-binding site [nucleotide binding]; DNA binding site 272630007606 RNA-binding motif; other site 272630007607 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 protein; Region: CSP_CDS; cd04458 272630007608 DNA-binding site [nucleotide binding]; DNA binding site 272630007609 RNA-binding motif; other site 272630007610 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630007611 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 272630007612 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 272630007613 interface (dimer of trimers) [polypeptide binding]; other site 272630007614 Substrate-binding/catalytic site; other site 272630007615 Zn-binding sites [ion binding]; other site 272630007616 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 272630007617 TPR motif; other site 272630007618 binding surface 272630007619 TPR repeat; Region: TPR_11; pfam13414 272630007620 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 272630007621 binding surface 272630007622 TPR motif; other site 272630007623 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 272630007624 Membrane transport protein; Region: Mem_trans; cl09117 272630007625 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 272630007626 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630007627 active site 272630007628 nucleotide binding site [chemical binding]; other site 272630007629 HIGH motif; other site 272630007630 KMSKS motif; other site 272630007631 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 272630007632 peptide chain release factor 2; Provisional; Region: PRK07342 272630007633 RF-1 domain; Region: RF-1; cl02875 272630007634 RF-1 domain; Region: RF-1; cl02875 272630007635 Peptidase family M23; Region: Peptidase_M23; pfam01551 272630007636 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 272630007637 catalytic triad [active] 272630007638 Protein of unknown function; Region: DUF3971; pfam13116 272630007639 AsmA-like C-terminal region; Region: AsmA_2; cl15864 272630007640 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 272630007641 putative di-iron ligands [ion binding]; other site 272630007642 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272630007643 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272630007644 active site 272630007645 HIGH motif; other site 272630007646 dimer interface [polypeptide binding]; other site 272630007647 KMSKS motif; other site 272630007648 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 272630007649 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 272630007650 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 272630007651 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630007652 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 272630007653 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272630007654 Tetramer interface [polypeptide binding]; other site 272630007655 active site 272630007656 FMN-binding site [chemical binding]; other site 272630007657 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 272630007658 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 272630007659 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; cl00522 272630007660 dimerization interface [polypeptide binding]; other site 272630007661 active site 272630007662 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 272630007663 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630007664 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 272630007665 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272630007666 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630007667 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272630007668 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 272630007669 carboxyltransferase (CT) interaction site; other site 272630007670 biotinylation site [posttranslational modification]; other site 272630007671 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 272630007672 putative active site pocket [active] 272630007673 dimerization interface [polypeptide binding]; other site 272630007674 putative catalytic residue [active] 272630007675 Acylphosphatase; Region: Acylphosphatase; cl00551 272630007676 Protein of unknown function, DUF599; Region: DUF599; cl01575 272630007677 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 272630007678 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 272630007679 putative active site [active] 272630007680 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630007681 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 272630007682 putative C-terminal domain interface [polypeptide binding]; other site 272630007683 putative GSH binding site (G-site) [chemical binding]; other site 272630007684 putative dimer interface [polypeptide binding]; other site 272630007685 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 272630007686 N-terminal domain interface [polypeptide binding]; other site 272630007687 dimer interface [polypeptide binding]; other site 272630007688 substrate binding pocket (H-site) [chemical binding]; other site 272630007689 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 272630007690 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272630007691 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630007692 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 272630007693 motif 1; other site 272630007694 dimer interface [polypeptide binding]; other site 272630007695 active site 272630007696 motif 2; other site 272630007697 motif 3; other site 272630007698 elongation factor P; Validated; Region: PRK00529 272630007699 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272630007700 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 272630007701 RNA binding site [nucleotide binding]; other site 272630007702 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 272630007703 RNA binding site [nucleotide binding]; other site 272630007704 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 272630007705 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 protein; Region: CSP_CDS; cd04458 272630007706 DNA-binding site [nucleotide binding]; DNA binding site 272630007707 RNA-binding motif; other site 272630007708 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 protein; Region: CSP_CDS; cd04458 272630007709 DNA-binding site [nucleotide binding]; DNA binding site 272630007710 RNA-binding motif; other site 272630007711 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 272630007712 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 272630007713 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 272630007714 metal ion-dependent adhesion site (MIDAS); other site 272630007715 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 272630007716 phytoene desaturase; Region: crtI_fam; TIGR02734 272630007717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007718 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 272630007719 active site lid residues [active] 272630007720 substrate binding pocket [chemical binding]; other site 272630007721 catalytic residues [active] 272630007722 substrate-Mg2+ binding site; other site 272630007723 aspartate-rich region 1; other site 272630007724 aspartate-rich region 2; other site 272630007725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630007726 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272630007727 UreF; Region: UreF; pfam01730 272630007728 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; cd00571 272630007729 dimer interface [polypeptide binding]; other site 272630007730 catalytic residues [active] 272630007731 urease subunit alpha; Reviewed; Region: ureC; PRK13207 272630007732 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 272630007733 subunit interactions [polypeptide binding]; other site 272630007734 active site 272630007735 flap region; other site 272630007736 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 272630007737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630007738 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 272630007739 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 272630007740 alpha-gamma subunit interface [polypeptide binding]; other site 272630007741 beta-gamma subunit interface [polypeptide binding]; other site 272630007742 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 272630007743 alpha-beta subunit interface [polypeptide binding]; other site 272630007744 UreD urease accessory protein; Region: UreD; cl00530 272630007745 Flavin Reductases; Region: FlaRed; cl00801 272630007746 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 272630007747 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272630007748 active site 272630007749 putative substrate binding pocket [chemical binding]; other site 272630007750 GcrA cell cycle regulator; Region: GcrA; cl11564 272630007751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007752 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272630007753 NAD(P) binding site [chemical binding]; other site 272630007754 active site 272630007755 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 272630007756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007757 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272630007758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007759 threonine dehydratase; Reviewed; Region: PRK09224 272630007760 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 272630007761 tetramer interface [polypeptide binding]; other site 272630007762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630007763 catalytic residue [active] 272630007764 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 272630007765 putative Ile/Val binding site [chemical binding]; other site 272630007766 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 272630007767 putative Ile/Val binding site [chemical binding]; other site 272630007768 PilZ domain; Region: PilZ; cl01260 272630007769 SlyX; Region: SlyX; cl01090 272630007770 Porin subfamily; Region: Porin_2; pfam02530 272630007771 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272630007772 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 272630007773 Class II flagellar assembly regulator; Region: FliX; cl11677 272630007774 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 272630007775 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 272630007776 Rod binding protein; Region: Rod-binding; cl01626 272630007777 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 272630007778 Flagellar L-ring protein; Region: FlgH; cl00905 272630007779 SAF domain; Region: SAF; cl00555 272630007780 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 272630007781 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630007782 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630007783 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 272630007784 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272630007785 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272630007786 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 272630007787 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 272630007788 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272630007789 MgtE intracellular N domain; Region: MgtE_N; cl15244 272630007790 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 272630007791 catalytic residues [active] 272630007792 dimer interface [polypeptide binding]; other site 272630007793 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272630007794 Transglycosylase SLT domain; Region: SLT_2; pfam13406 272630007795 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 catalyze...; Region: LT_GEWL; cd00254 272630007796 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630007797 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630007798 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630007799 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 272630007800 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 272630007801 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 272630007802 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272630007803 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 272630007804 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272630007805 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 272630007806 dimer interface [polypeptide binding]; other site 272630007807 phosphorylation site [posttranslational modification] 272630007808 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 272630007809 ATP binding site [chemical binding]; other site 272630007810 Mg2+ binding site [ion binding]; other site 272630007811 G-X-G motif; other site 272630007812 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630007813 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 272630007814 active site 272630007815 phosphorylation site [posttranslational modification] 272630007816 intermolecular recognition site; other site 272630007817 dimerization interface [polypeptide binding]; other site 272630007818 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 272630007819 ATP binding site [chemical binding]; other site 272630007820 Walker A motif; other site 272630007821 Walker B motif; other site 272630007822 arginine finger; other site 272630007823 Helix-turn-helix domains; Region: HTH; cl00088 272630007824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630007825 metal binding site [ion binding]; metal-binding site 272630007826 active site 272630007827 I-site; other site 272630007828 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272630007829 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272630007830 GatB domain; Region: GatB_Yqey; cl11497 272630007831 Cation efflux family; Region: Cation_efflux; cl00316 272630007832 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 272630007833 FAD binding domain; Region: FAD_binding_3; pfam01494 272630007834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007835 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272630007836 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 272630007837 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 272630007838 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 272630007839 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 272630007840 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 272630007841 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630007842 active site 272630007843 ATP binding site [chemical binding]; other site 272630007844 substrate binding site [chemical binding]; other site 272630007845 activation loop (A-loop); other site 272630007846 Uncharacterized conserved protein [Function unknown]; Region: COG3025 272630007847 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 272630007848 putative active site [active] 272630007849 putative metal binding residues [ion binding]; other site 272630007850 signature motif; other site 272630007851 putative triphosphate binding site [ion binding]; other site 272630007852 CHAD domain; Region: CHAD; cl10506 272630007853 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 272630007854 putative active site [active] 272630007855 putative metal binding residues [ion binding]; other site 272630007856 signature motif; other site 272630007857 putative dimer interface [polypeptide binding]; other site 272630007858 putative phosphate binding site [ion binding]; other site 272630007859 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 272630007860 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630007861 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630007862 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 272630007863 Uncharacterized conserved protein [Function unknown]; Region: COG2128 272630007864 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272630007865 Cupin domain; Region: Cupin_2; cl09118 272630007866 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 272630007867 catalytic loop [active] 272630007868 iron binding site [ion binding]; other site 272630007869 cyclase homology domain; Region: CHD; cd07302 272630007870 nucleotidyl binding site; other site 272630007871 metal binding site [ion binding]; metal-binding site 272630007872 dimer interface [polypeptide binding]; other site 272630007873 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630007874 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630007875 Major royal jelly protein; Region: MRJP; pfam03022 272630007876 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 272630007877 putative heme binding pocket [chemical binding]; other site 272630007878 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 272630007879 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 272630007880 aminotransferase; Validated; Region: PRK09148 272630007881 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 272630007882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630007883 homodimer interface [polypeptide binding]; other site 272630007884 catalytic residue [active] 272630007885 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 272630007886 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 272630007887 putative cation:proton antiport protein; Provisional; Region: PRK10669 272630007888 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272630007889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007890 Helix-turn-helix domains; Region: HTH; cl00088 272630007891 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272630007892 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 272630007893 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 272630007894 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 272630007895 dimer interface [polypeptide binding]; other site 272630007896 motif 1; other site 272630007897 active site 272630007898 motif 2; other site 272630007899 motif 3; other site 272630007900 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630007901 Helix-turn-helix domains; Region: HTH; cl00088 272630007902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 272630007903 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 272630007904 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272630007905 tandem repeat interface [polypeptide binding]; other site 272630007906 oligomer interface [polypeptide binding]; other site 272630007907 active site residues [active] 272630007908 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272630007909 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 272630007910 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 272630007911 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272630007912 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272630007913 substrate binding pocket [chemical binding]; other site 272630007914 chain length determination region; other site 272630007915 substrate-Mg2+ binding site; other site 272630007916 catalytic residues [active] 272630007917 aspartate-rich region 1; other site 272630007918 active site lid residues [active] 272630007919 aspartate-rich region 2; other site 272630007920 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 272630007921 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272630007922 Porin subfamily; Region: Porin_2; pfam02530 272630007923 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272630007924 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 272630007925 binding surface 272630007926 TPR motif; other site 272630007927 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 272630007928 binding surface 272630007929 TPR motif; other site 272630007930 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 272630007931 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 272630007932 active site 272630007933 non-prolyl cis peptide bond; other site 272630007934 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 272630007935 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630007936 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272630007937 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 272630007938 Walker A/P-loop; other site 272630007939 ATP binding site [chemical binding]; other site 272630007940 Q-loop/lid; other site 272630007941 ABC transporter signature motif; other site 272630007942 Walker B; other site 272630007943 D-loop; other site 272630007944 H-loop/switch region; other site 272630007945 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272630007946 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; cl00075 272630007947 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 272630007948 anchoring element; other site 272630007949 dimer interface [polypeptide binding]; other site 272630007950 ATP binding site [chemical binding]; other site 272630007951 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 272630007952 active site 272630007953 metal binding site [ion binding]; metal-binding site 272630007954 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272630007955 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 272630007956 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 272630007957 tetramer interface [polypeptide binding]; other site 272630007958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630007959 catalytic residue [active] 272630007960 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272630007961 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630007962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630007963 Walker A/P-loop; other site 272630007964 ATP binding site [chemical binding]; other site 272630007965 Q-loop/lid; other site 272630007966 ABC transporter signature motif; other site 272630007967 Walker B; other site 272630007968 D-loop; other site 272630007969 H-loop/switch region; other site 272630007970 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 272630007971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272630007972 putative substrate translocation pore; other site 272630007973 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272630007974 SWIB/MDM2 domain; Region: SWIB; cl02489 272630007975 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630007976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007977 NAD(P) binding site [chemical binding]; other site 272630007978 active site 272630007979 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272630007980 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 272630007981 putative substrate translocation pore; other site 272630007982 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630007983 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630007984 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630007985 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272630007986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630007987 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 272630007988 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 272630007989 C-terminal domain interface [polypeptide binding]; other site 272630007990 GSH binding site (G-site) [chemical binding]; other site 272630007991 dimer interface [polypeptide binding]; other site 272630007992 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 272630007993 N-terminal domain interface [polypeptide binding]; other site 272630007994 putative dimer interface [polypeptide binding]; other site 272630007995 active site 272630007996 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 272630007997 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 272630007998 nucleoside/Zn binding site; other site 272630007999 dimer interface [polypeptide binding]; other site 272630008000 catalytic motif [active] 272630008001 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 272630008002 Short C-terminal domain; Region: SHOCT; cl01373 272630008003 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 272630008004 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 272630008005 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 272630008006 active site 272630008007 catalytic site [active] 272630008008 histidine kinase; Provisional; Region: PRK13557 272630008009 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 272630008010 putative active site [active] 272630008011 heme pocket [chemical binding]; other site 272630008012 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 272630008013 dimer interface [polypeptide binding]; other site 272630008014 phosphorylation site [posttranslational modification] 272630008015 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 272630008016 ATP binding site [chemical binding]; other site 272630008017 Mg2+ binding site [ion binding]; other site 272630008018 G-X-G motif; other site 272630008019 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 272630008020 active site 272630008021 phosphorylation site [posttranslational modification] 272630008022 intermolecular recognition site; other site 272630008023 dimerization interface [polypeptide binding]; other site 272630008024 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272630008025 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 272630008026 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 272630008027 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272630008028 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 272630008029 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272630008030 putative NAD(P) binding site [chemical binding]; other site 272630008031 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630008032 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 272630008033 dimerization interface [polypeptide binding]; other site 272630008034 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630008035 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630008036 dimer interface [polypeptide binding]; other site 272630008037 putative CheW interface [polypeptide binding]; other site 272630008038 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630008039 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 272630008040 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 272630008041 homodimer interface [polypeptide binding]; other site 272630008042 substrate-cofactor binding pocket; other site 272630008043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630008044 catalytic residue [active] 272630008045 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 272630008046 active site 272630008047 phosphorylation site [posttranslational modification] 272630008048 intermolecular recognition site; other site 272630008049 dimerization interface [polypeptide binding]; other site 272630008050 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 272630008051 Cysteine-rich domain; Region: CCG; pfam02754 272630008052 Cysteine-rich domain; Region: CCG; pfam02754 272630008053 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630008054 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 272630008055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630008056 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 272630008057 ATP binding site [chemical binding]; other site 272630008058 putative Mg++ binding site [ion binding]; other site 272630008059 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 272630008060 nucleotide binding region [chemical binding]; other site 272630008061 ATP-binding site [chemical binding]; other site 272630008062 DEAD/H associated; Region: DEAD_assoc; pfam08494 272630008063 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 272630008064 putative active site [active] 272630008065 putative metal binding site [ion binding]; other site 272630008066 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 272630008067 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 272630008068 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 272630008069 putative ion selectivity filter; other site 272630008070 putative pore gating glutamate residue; other site 272630008071 putative H+/Cl- coupling transport residue; other site 272630008072 short chain dehydrogenase; Provisional; Region: PRK06197 272630008073 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 272630008074 putative NAD(P) binding site [chemical binding]; other site 272630008075 active site 272630008076 thiamine monophosphate kinase; Provisional; Region: PRK05731 272630008077 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 272630008078 ATP binding site [chemical binding]; other site 272630008079 dimerization interface [polypeptide binding]; other site 272630008080 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 272630008081 putative RNA binding site [nucleotide binding]; other site 272630008082 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 272630008083 homopentamer interface [polypeptide binding]; other site 272630008084 active site 272630008085 hypothetical protein; Validated; Region: PRK08238 272630008086 UbiA prenyltransferase family; Region: UbiA; cl00337 272630008087 GtrA-like protein; Region: GtrA; cl00971 272630008088 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272630008089 Lumazine binding domain; Region: Lum_binding; pfam00677 272630008090 Lumazine binding domain; Region: Lum_binding; pfam00677 272630008091 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 272630008092 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 272630008093 catalytic motif [active] 272630008094 Zn binding site [ion binding]; other site 272630008095 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; cl00161 272630008096 ATP cone domain; Region: ATP-cone; pfam03477 272630008097 Helix-turn-helix domains; Region: HTH; cl00088 272630008098 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272630008099 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 272630008100 dimer interface [polypeptide binding]; other site 272630008101 active site 272630008102 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272630008103 folate binding site [chemical binding]; other site 272630008104 Plant ATP synthase F0; Region: YMF19; cl07975 272630008105 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 272630008106 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272630008107 ATP synthase A chain; Region: ATP-synt_A; cl00413 272630008108 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 272630008109 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630008110 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630008111 Protein of unknown function (DUF721); Region: DUF721; cl02324 272630008112 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 272630008113 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630008114 minor groove reading motif; other site 272630008115 helix-hairpin-helix signature motif; other site 272630008116 substrate binding pocket [chemical binding]; other site 272630008117 active site 272630008118 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 272630008119 DNA binding and oxoG recognition site [nucleotide binding] 272630008120 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272630008121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008122 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 272630008123 ABC transporter ATPase component; Reviewed; Region: PRK11147 272630008124 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630008125 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630008126 Porin subfamily; Region: Porin_2; pfam02530 272630008127 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 272630008128 ligand binding site [chemical binding]; other site 272630008129 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 272630008130 cyclase homology domain; Region: CHD; cd07302 272630008131 nucleotidyl binding site; other site 272630008132 metal binding site [ion binding]; metal-binding site 272630008133 dimer interface [polypeptide binding]; other site 272630008134 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630008135 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272630008136 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 catalyze...; Region: LT_GEWL; cd00254 272630008137 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630008138 catalytic residue [active] 272630008139 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272630008140 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272630008141 dimer interface [polypeptide binding]; other site 272630008142 active site 272630008143 catalytic residue [active] 272630008144 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 272630008145 SmpB-tmRNA interface; other site 272630008146 LabA_like proteins; Region: LabA; cd10911 272630008147 putative metal binding site [ion binding]; other site 272630008148 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 272630008149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630008150 active site 272630008151 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272630008152 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630008153 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272630008154 synthetase active site [active] 272630008155 NTP binding site [chemical binding]; other site 272630008156 metal binding site [ion binding]; metal-binding site 272630008157 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 272630008158 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272630008159 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 272630008160 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 272630008161 NifU-like domain; Region: NifU; cl00484 272630008162 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272630008163 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272630008164 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630008165 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 272630008166 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272630008167 putative acyl-acceptor binding pocket; other site 272630008168 MEKHLA domain; Region: MEKHLA; pfam08670 272630008169 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 272630008170 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 272630008171 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272630008172 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 272630008173 FeS/SAM binding site; other site 272630008174 TRAM domain; Region: TRAM; cl01282 272630008175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630008176 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 272630008177 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 272630008178 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 272630008179 Transporter associated domain; Region: CorC_HlyC; cl08393 272630008180 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 272630008181 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 272630008182 putative active site [active] 272630008183 catalytic triad [active] 272630008184 putative dimer interface [polypeptide binding]; other site 272630008185 BA14K-like protein; Region: BA14K; pfam07886 272630008186 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 272630008187 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 272630008188 tetramer interface [polypeptide binding]; other site 272630008189 heme binding pocket [chemical binding]; other site 272630008190 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 272630008191 Helix-turn-helix domains; Region: HTH; cl00088 272630008192 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 272630008193 dimerization interface [polypeptide binding]; other site 272630008194 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 272630008195 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 272630008196 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 272630008197 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 272630008198 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630008199 putative active site [active] 272630008200 putative metal binding site [ion binding]; other site 272630008201 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272630008202 TIGR03440 family protein; Region: unchr_TIGR03440 272630008203 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 272630008204 probable methyltransferase; Region: TIGR03438 272630008205 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 272630008206 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 272630008207 active site 272630008208 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630008209 Protein of unknown function (DUF779); Region: DUF779; cl01432 272630008210 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 272630008211 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 272630008212 [4Fe-4S] binding site [ion binding]; other site 272630008213 molybdopterin cofactor binding site; other site 272630008214 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 272630008215 molybdopterin cofactor binding site; other site 272630008216 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 272630008217 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272630008218 siroheme synthase; Provisional; Region: cysG; PRK10637 272630008219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008220 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 272630008221 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630008222 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 272630008223 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 272630008224 Cu(I) binding site [ion binding]; other site 272630008225 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272630008226 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 272630008227 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630008228 active site 272630008229 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272630008230 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 272630008231 substrate binding pocket [chemical binding]; other site 272630008232 membrane-bound complex binding site; other site 272630008233 hinge residues; other site 272630008234 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 272630008235 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 272630008236 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 272630008237 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 272630008238 metal ion-dependent adhesion site (MIDAS); other site 272630008239 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 272630008240 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 272630008241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630008242 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 272630008243 HSP70 interaction site [polypeptide binding]; other site 272630008244 BolA-like protein; Region: BolA; cl00386 272630008245 RF-1 domain; Region: RF-1; cl02875 272630008246 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 272630008247 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 272630008248 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 272630008249 S-adenosylmethionine binding site [chemical binding]; other site 272630008250 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 272630008251 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 272630008252 ATP-dependent DNA ligase [DNA replication, recombination, and repair]; Region: CDC9; COG1793 272630008253 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 272630008254 active site 272630008255 DNA binding site [nucleotide binding] 272630008256 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 272630008257 DNA binding site [nucleotide binding] 272630008258 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 272630008259 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630008260 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 272630008261 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 272630008262 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 272630008263 substrate binding site [chemical binding]; other site 272630008264 oxyanion hole (OAH) forming residues; other site 272630008265 trimer interface [polypeptide binding]; other site 272630008266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008267 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272630008268 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 272630008269 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 272630008270 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 272630008271 dimer interface [polypeptide binding]; other site 272630008272 active site 272630008273 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 272630008274 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 272630008275 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 272630008276 FAD binding site [chemical binding]; other site 272630008277 substrate binding site [chemical binding]; other site 272630008278 catalytic residues [active] 272630008279 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272630008280 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272630008281 Sel1 repeat; Region: Sel1; cl02723 272630008282 Sel1 repeat; Region: Sel1; cl02723 272630008283 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 272630008284 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272630008285 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 272630008286 active site 272630008287 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272630008288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008289 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272630008290 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272630008291 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272630008292 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272630008293 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 272630008294 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, cyanobacteria; Region: Thr-synth_2; cd01560 272630008295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630008296 catalytic residue [active] 272630008297 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 272630008298 Protein of unknown function (DUF983); Region: DUF983; cl02211 272630008299 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 272630008300 Subunit III/VIIa interface [polypeptide binding]; other site 272630008301 Phospholipid binding site [chemical binding]; other site 272630008302 Subunit I/III interface [polypeptide binding]; other site 272630008303 Subunit III/VIb interface [polypeptide binding]; other site 272630008304 Subunit III/VIa interface; other site 272630008305 Subunit III/Vb interface [polypeptide binding]; other site 272630008306 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 272630008307 UbiA prenyltransferase family; Region: UbiA; cl00337 272630008308 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 272630008309 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 272630008310 Subunit I/III interface [polypeptide binding]; other site 272630008311 D-pathway; other site 272630008312 Subunit I/VIIc interface [polypeptide binding]; other site 272630008313 Subunit I/IV interface [polypeptide binding]; other site 272630008314 Subunit I/II interface [polypeptide binding]; other site 272630008315 Low-spin heme (heme a) binding site [chemical binding]; other site 272630008316 Subunit I/VIIa interface [polypeptide binding]; other site 272630008317 Subunit I/VIa interface [polypeptide binding]; other site 272630008318 Dimer interface; other site 272630008319 Putative water exit pathway; other site 272630008320 Binuclear center (heme a3/CuB) [ion binding]; other site 272630008321 K-pathway; other site 272630008322 Subunit I/Vb interface [polypeptide binding]; other site 272630008323 Putative proton exit pathway; other site 272630008324 Subunit I/VIb interface; other site 272630008325 Subunit I/VIc interface [polypeptide binding]; other site 272630008326 Electron transfer pathway; other site 272630008327 Subunit I/VIIIb interface [polypeptide binding]; other site 272630008328 Subunit I/VIIb interface [polypeptide binding]; other site 272630008329 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 272630008330 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 272630008331 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630008332 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 272630008333 translation initiation factor IF-2; Validated; Region: infB; PRK05306 272630008334 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 272630008335 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 272630008336 active site 272630008337 dimer interface [polypeptide binding]; other site 272630008338 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 272630008339 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 272630008340 active site 272630008341 FMN binding site [chemical binding]; other site 272630008342 substrate binding site [chemical binding]; other site 272630008343 3Fe-4S cluster binding site [ion binding]; other site 272630008344 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 272630008345 domain interface; other site 272630008346 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 272630008347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008348 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 272630008349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630008350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272630008351 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630008352 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 272630008353 active site 272630008354 phosphorylation site [posttranslational modification] 272630008355 intermolecular recognition site; other site 272630008356 dimerization interface [polypeptide binding]; other site 272630008357 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630008358 DNA binding residues [nucleotide binding] 272630008359 dimerization interface [polypeptide binding]; other site 272630008360 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 272630008361 active site 272630008362 catalytic triad [active] 272630008363 oxyanion hole [active] 272630008364 Transglycosylase SLT domain; Region: SLT_2; pfam13406 272630008365 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 catalyze...; Region: LT_GEWL; cd00254 272630008366 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630008367 catalytic residue [active] 272630008368 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630008369 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272630008370 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272630008371 NAD binding site [chemical binding]; other site 272630008372 homodimer interface [polypeptide binding]; other site 272630008373 active site 272630008374 substrate binding site [chemical binding]; other site 272630008375 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272630008376 active site 272630008377 tetramer interface; other site 272630008378 N-formylglutamate amidohydrolase; Region: FGase; cl01522 272630008379 Response regulator receiver domain; Region: Response_reg; pfam00072 272630008380 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 272630008381 active site 272630008382 phosphorylation site [posttranslational modification] 272630008383 intermolecular recognition site; other site 272630008384 dimerization interface [polypeptide binding]; other site 272630008385 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 272630008386 GSH binding site [chemical binding]; other site 272630008387 catalytic residues [active] 272630008388 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 272630008389 putative active site [active] 272630008390 catalytic triad [active] 272630008391 dimer interface [polypeptide binding]; other site 272630008392 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 272630008393 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 272630008394 PAS domain; Region: PAS_9; pfam13426 272630008395 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630008396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630008397 Histidine kinase; Region: HisKA_2; cl06527 272630008398 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 272630008399 ATP binding site [chemical binding]; other site 272630008400 Mg2+ binding site [ion binding]; other site 272630008401 G-X-G motif; other site 272630008402 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272630008403 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 272630008404 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 272630008405 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630008406 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 272630008407 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 272630008408 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272630008409 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 272630008410 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 272630008411 catalytic residues [active] 272630008412 argininosuccinate lyase; Provisional; Region: PRK00855 272630008413 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272630008414 active sites [active] 272630008415 tetramer interface [polypeptide binding]; other site 272630008416 glutamine-tRNA ligase; Region: PLN02859 272630008417 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 272630008418 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 272630008419 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 272630008420 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 272630008421 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 272630008422 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 272630008423 motif II; other site 272630008424 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 272630008425 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272630008426 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272630008427 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272630008428 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 272630008429 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 272630008430 PAS fold; Region: PAS_3; pfam08447 272630008431 putative active site [active] 272630008432 heme pocket [chemical binding]; other site 272630008433 PAS fold; Region: PAS_3; pfam08447 272630008434 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 272630008435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630008436 Histidine kinase; Region: HisKA_2; cl06527 272630008437 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630008438 Probable Catalytic site; other site 272630008439 metal-binding site 272630008440 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 272630008441 active site 272630008442 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 272630008443 Peptidase family M48; Region: Peptidase_M48; cl12018 272630008444 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 272630008445 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272630008446 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 272630008447 non-specific DNA binding site [nucleotide binding]; other site 272630008448 salt bridge; other site 272630008449 sequence-specific DNA binding site [nucleotide binding]; other site 272630008450 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272630008451 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272630008452 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272630008453 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272630008454 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; cl15754 272630008455 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 272630008456 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 272630008457 active site 272630008458 interdomain interaction site; other site 272630008459 putative metal-binding site [ion binding]; other site 272630008460 nucleotide binding site [chemical binding]; other site 272630008461 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 272630008462 domain I; other site 272630008463 DNA binding groove [nucleotide binding] 272630008464 phosphate binding site [ion binding]; other site 272630008465 domain II; other site 272630008466 domain III; other site 272630008467 nucleotide binding site [chemical binding]; other site 272630008468 catalytic site [active] 272630008469 domain IV; other site 272630008470 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272630008471 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272630008472 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272630008473 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 272630008474 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 272630008475 Moco binding site; other site 272630008476 metal coordination site [ion binding]; other site 272630008477 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 272630008478 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 272630008479 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272630008480 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272630008481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008482 dihydroorotase; Validated; Region: PRK09059 272630008483 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 272630008484 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 272630008485 active site 272630008486 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 272630008487 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 272630008488 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272630008489 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 272630008490 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 272630008491 active site 272630008492 catalytic triad [active] 272630008493 oxyanion hole [active] 272630008494 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 272630008495 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 272630008496 conserved cys residue [active] 272630008497 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 includes...; Region: RuvC_resolvase; cl00243 272630008498 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 272630008499 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272630008500 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272630008501 Amidase; Region: Amidase; cl11426 272630008502 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630008503 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 272630008504 non-specific DNA binding site [nucleotide binding]; other site 272630008505 salt bridge; other site 272630008506 sequence-specific DNA binding site [nucleotide binding]; other site 272630008507 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630008508 Protein export membrane protein; Region: SecD_SecF; cl14618 272630008509 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 272630008510 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630008511 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630008512 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630008513 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 272630008514 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 272630008515 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630008516 catalytic residue [active] 272630008517 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 272630008518 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 272630008519 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 272630008520 Usg-like family; Region: Usg; cl11567 272630008521 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272630008522 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 272630008523 ring oligomerisation interface [polypeptide binding]; other site 272630008524 ATP/Mg binding site [chemical binding]; other site 272630008525 stacking interactions; other site 272630008526 hinge regions; other site 272630008527 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 272630008528 oligomerisation interface [polypeptide binding]; other site 272630008529 mobile loop; other site 272630008530 roof hairpin; other site 272630008531 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 272630008532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630008533 active site 272630008534 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272630008535 NMT1-like family; Region: NMT1_2; cl15260 272630008536 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 272630008537 Moco binding site; other site 272630008538 metal coordination site [ion binding]; other site 272630008539 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630008540 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 272630008541 membrane-bound complex binding site; other site 272630008542 hinge residues; other site 272630008543 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 272630008544 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272630008545 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 272630008546 xanthine permease; Region: pbuX; TIGR03173 272630008547 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 272630008548 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 272630008549 putative catalytic residue [active] 272630008550 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630008551 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630008552 Walker A/P-loop; other site 272630008553 ATP binding site [chemical binding]; other site 272630008554 Q-loop/lid; other site 272630008555 ABC transporter signature motif; other site 272630008556 Walker B; other site 272630008557 D-loop; other site 272630008558 H-loop/switch region; other site 272630008559 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 272630008560 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630008561 NMT1-like family; Region: NMT1_2; cl15260 272630008562 NosL; Region: NosL; cl01769 272630008563 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 272630008564 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630008565 ligand binding site [chemical binding]; other site 272630008566 flexible hinge region; other site 272630008567 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 272630008568 putative switch regulator; other site 272630008569 non-specific DNA interactions [nucleotide binding]; other site 272630008570 DNA binding site [nucleotide binding] 272630008571 sequence specific DNA binding site [nucleotide binding]; other site 272630008572 putative cAMP binding site [chemical binding]; other site 272630008573 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 272630008574 Ferredoxin [Energy production and conversion]; Region: COG1146 272630008575 putative oxidoreductase; Provisional; Region: PRK08275 272630008576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008577 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272630008578 Protein of unknown function (DUF971); Region: DUF971; cl01414 272630008579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630008580 metal binding site [ion binding]; metal-binding site 272630008581 active site 272630008582 I-site; other site 272630008583 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 272630008584 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272630008585 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 272630008586 Helix-turn-helix domains; Region: HTH; cl00088 272630008587 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 272630008588 putative dimerization interface [polypeptide binding]; other site 272630008589 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 272630008590 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 272630008591 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630008592 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 272630008593 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 272630008594 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 272630008595 Walker A/P-loop; other site 272630008596 ATP binding site [chemical binding]; other site 272630008597 Q-loop/lid; other site 272630008598 ABC transporter signature motif; other site 272630008599 Walker B; other site 272630008600 D-loop; other site 272630008601 H-loop/switch region; other site 272630008602 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 272630008603 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 272630008604 Walker A/P-loop; other site 272630008605 ATP binding site [chemical binding]; other site 272630008606 Q-loop/lid; other site 272630008607 ABC transporter signature motif; other site 272630008608 Walker B; other site 272630008609 D-loop; other site 272630008610 H-loop/switch region; other site 272630008611 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 272630008612 TM-ABC transporter signature motif; other site 272630008613 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 272630008614 TM-ABC transporter signature motif; other site 272630008615 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630008616 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 272630008617 putative ligand binding site [chemical binding]; other site 272630008618 Sodium:solute symporter family; Region: SSF; cl00456 272630008619 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 272630008620 dimer interface [polypeptide binding]; other site 272630008621 phosphorylation site [posttranslational modification] 272630008622 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 272630008623 ATP binding site [chemical binding]; other site 272630008624 Mg2+ binding site [ion binding]; other site 272630008625 G-X-G motif; other site 272630008626 Response regulator receiver domain; Region: Response_reg; pfam00072 272630008627 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 272630008628 active site 272630008629 phosphorylation site [posttranslational modification] 272630008630 intermolecular recognition site; other site 272630008631 dimerization interface [polypeptide binding]; other site 272630008632 Response regulator receiver domain; Region: Response_reg; pfam00072 272630008633 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 272630008634 active site 272630008635 phosphorylation site [posttranslational modification] 272630008636 intermolecular recognition site; other site 272630008637 dimerization interface [polypeptide binding]; other site 272630008638 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 272630008639 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630008640 DNA binding residues [nucleotide binding] 272630008641 dimerization interface [polypeptide binding]; other site 272630008642 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 272630008643 similar to hypothetical protein; Evidence 6 : Doubtful CDS 272630008644 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 272630008645 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 272630008646 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 272630008647 ParA-like protein; Provisional; Region: PHA02518 272630008648 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 272630008649 P-loop; other site 272630008650 Magnesium ion binding site [ion binding]; other site 272630008651 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 272630008652 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272630008653 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 272630008654 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 272630008655 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 272630008656 active site 272630008657 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 272630008658 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272630008659 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272630008660 active site 272630008661 HIGH motif; other site 272630008662 KMSK motif region; other site 272630008663 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272630008664 tRNA binding surface [nucleotide binding]; other site 272630008665 anticodon binding site; other site 272630008666 Sporulation related domain; Region: SPOR; cl10051 272630008667 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272630008668 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272630008669 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272630008670 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 272630008671 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 272630008672 putative substrate translocation pore; other site 272630008673 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630008674 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630008675 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 272630008676 substrate binding pocket [chemical binding]; other site 272630008677 membrane-bound complex binding site; other site 272630008678 hinge residues; other site 272630008679 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 272630008680 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630008681 Walker A/P-loop; other site 272630008682 ATP binding site [chemical binding]; other site 272630008683 Q-loop/lid; other site 272630008684 ABC transporter signature motif; other site 272630008685 Walker B; other site 272630008686 D-loop; other site 272630008687 H-loop/switch region; other site 272630008688 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 272630008689 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 272630008690 active site 272630008691 dimer interface [polypeptide binding]; other site 272630008692 non-prolyl cis peptide bond; other site 272630008693 insertion regions; other site 272630008694 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630008695 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 272630008696 substrate binding pocket [chemical binding]; other site 272630008697 membrane-bound complex binding site; other site 272630008698 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630008699 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 272630008700 substrate binding pocket [chemical binding]; other site 272630008701 membrane-bound complex binding site; other site 272630008702 hinge residues; other site 272630008703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 272630008704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630008705 cytidine deaminase; Provisional; Region: PRK09027 272630008706 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 272630008707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 272630008708 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 272630008709 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272630008710 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272630008711 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630008712 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 272630008713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 272630008714 Uncharacterized conserved protein [Function unknown]; Region: COG2308 272630008715 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 272630008716 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 272630008717 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 272630008718 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 272630008719 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630008720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630008721 Helix-turn-helix domains; Region: HTH; cl00088 272630008722 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272630008723 classical (c) SDRs; Region: SDR_c; cd05233 272630008724 NAD(P) binding site [chemical binding]; other site 272630008725 active site 272630008726 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 272630008727 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 272630008728 putative substrate translocation pore; other site 272630008729 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630008730 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 272630008731 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 272630008732 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 272630008733 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272630008734 NAD(P) binding site [chemical binding]; other site 272630008735 catalytic residues [active] 272630008736 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272630008737 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 272630008738 dimerization interface [polypeptide binding]; other site 272630008739 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630008740 dimer interface [polypeptide binding]; other site 272630008741 putative CheW interface [polypeptide binding]; other site 272630008742 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 272630008743 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 272630008744 dimer interface [polypeptide binding]; other site 272630008745 active site 272630008746 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272630008747 catalytic residues [active] 272630008748 substrate binding site [chemical binding]; other site 272630008749 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 272630008750 AMP-binding enzyme; Region: AMP-binding; cl15778 272630008751 AMP-binding enzyme; Region: AMP-binding; cl15778 272630008752 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630008753 DoxX; Region: DoxX; cl00976 272630008754 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 272630008755 putative transporter; Provisional; Region: PRK10504 272630008756 putative substrate translocation pore; other site 272630008757 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 272630008758 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272630008759 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 272630008760 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 272630008761 active site 272630008762 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 272630008763 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 272630008764 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 272630008765 S-adenosylmethionine binding site [chemical binding]; other site 272630008766 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 272630008767 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 272630008768 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 272630008769 active site 272630008770 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 272630008771 putative acyl-acceptor binding pocket; other site 272630008772 phytoene desaturase; Region: crtI_fam; TIGR02734 272630008773 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 272630008774 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 272630008775 catalytic triad [active] 272630008776 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630008777 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 272630008778 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272630008779 Walker A/P-loop; other site 272630008780 ATP binding site [chemical binding]; other site 272630008781 Q-loop/lid; other site 272630008782 ABC transporter signature motif; other site 272630008783 Walker B; other site 272630008784 D-loop; other site 272630008785 H-loop/switch region; other site 272630008786 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 272630008787 phytoene desaturase; Region: crtI_fam; TIGR02734 272630008788 HerA helicase [Replication, recombination, and repair]; Region: COG0433 272630008789 Domain of unknown function DUF87; Region: DUF87; pfam01935 272630008790 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 272630008791 putative active site [active] 272630008792 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272630008793 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272630008794 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 272630008795 dimer interaction site [polypeptide binding]; other site 272630008796 substrate-binding tunnel; other site 272630008797 active site 272630008798 catalytic site [active] 272630008799 substrate binding site [chemical binding]; other site 272630008800 Cation efflux family; Region: Cation_efflux; cl00316 272630008801 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 272630008802 putative active site [active] 272630008803 putative metal binding site [ion binding]; other site 272630008804 putative glutathione S-transferase; Provisional; Region: PRK10357 272630008805 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 272630008806 putative C-terminal domain interface [polypeptide binding]; other site 272630008807 putative GSH binding site (G-site) [chemical binding]; other site 272630008808 putative dimer interface [polypeptide binding]; other site 272630008809 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 272630008810 dimer interface [polypeptide binding]; other site 272630008811 N-terminal domain interface [polypeptide binding]; other site 272630008812 putative substrate binding pocket (H-site) [chemical binding]; other site 272630008813 Amidinotransferase; Region: Amidinotransf; cl12043 272630008814 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272630008815 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 272630008816 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 272630008817 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 272630008818 ligand binding site; other site 272630008819 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 272630008820 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 272630008821 B12 binding site [chemical binding]; other site 272630008822 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 272630008823 FeS/SAM binding site; other site 272630008824 YdjC-like protein; Region: YdjC; cl01344 272630008825 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 272630008826 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 272630008827 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 272630008828 FeS/SAM binding site; other site 272630008829 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 272630008830 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272630008831 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 272630008832 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272630008833 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 272630008834 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 272630008835 ATP-binding site [chemical binding]; other site 272630008836 Gluconate-6-phosphate binding site [chemical binding]; other site 272630008837 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 272630008838 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272630008839 active site 272630008840 motif I; other site 272630008841 motif II; other site 272630008842 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 catalyze...; Region: LT_GEWL; cd00254 272630008843 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630008844 catalytic residue [active] 272630008845 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 272630008846 potential protein location (conserved hypothetical protein) that overlaps protein (Hypothetical protein) 272630008847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 272630008848 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 272630008849 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 272630008850 putative acyltransferase; Provisional; Region: PRK05790 272630008851 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 272630008852 dimer interface [polypeptide binding]; other site 272630008853 active site 272630008854 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 272630008855 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272630008856 NAD(P) binding site [chemical binding]; other site 272630008857 homotetramer interface [polypeptide binding]; other site 272630008858 homodimer interface [polypeptide binding]; other site 272630008859 active site 272630008860 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 272630008861 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272630008862 putative acyl-acceptor binding pocket; other site 272630008863 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 272630008864 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 272630008865 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272630008866 FAD binding domain; Region: FAD_binding_4; pfam01565 272630008867 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272630008868 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 272630008869 nudix motif; other site 272630008870 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 272630008871 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 272630008872 inhibitor-cofactor binding pocket; inhibition site 272630008873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630008874 catalytic residue [active] 272630008875 Recombinase; Region: Recombinase; pfam07508 272630008876 Helix-turn-helix domains; Region: HTH; cl00088 272630008877 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 272630008878 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 272630008879 ligand binding site [chemical binding]; other site 272630008880 flexible hinge region; other site 272630008881 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 272630008882 putative switch regulator; other site 272630008883 non-specific DNA interactions [nucleotide binding]; other site 272630008884 DNA binding site [nucleotide binding] 272630008885 sequence specific DNA binding site [nucleotide binding]; other site 272630008886 putative cAMP binding site [chemical binding]; other site 272630008887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630008888 OsmC-like protein; Region: OsmC; cl00767 272630008889 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 272630008890 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272630008891 NMT1-like family; Region: NMT1_2; cl15260 272630008892 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630008893 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272630008894 Walker A/P-loop; other site 272630008895 ATP binding site [chemical binding]; other site 272630008896 Q-loop/lid; other site 272630008897 ABC transporter signature motif; other site 272630008898 Walker B; other site 272630008899 D-loop; other site 272630008900 H-loop/switch region; other site 272630008901 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630008902 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630008903 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 272630008904 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 272630008905 active site 272630008906 non-prolyl cis peptide bond; other site 272630008907 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 272630008908 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 272630008909 Walker A/P-loop; other site 272630008910 ATP binding site [chemical binding]; other site 272630008911 Q-loop/lid; other site 272630008912 ABC transporter signature motif; other site 272630008913 Walker B; other site 272630008914 D-loop; other site 272630008915 H-loop/switch region; other site 272630008916 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 272630008917 TM-ABC transporter signature motif; other site 272630008918 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 272630008919 TM-ABC transporter signature motif; other site 272630008920 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 272630008921 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630008922 putative ligand binding site [chemical binding]; other site 272630008923 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 272630008924 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 272630008925 Walker A/P-loop; other site 272630008926 ATP binding site [chemical binding]; other site 272630008927 Q-loop/lid; other site 272630008928 ABC transporter signature motif; other site 272630008929 Walker B; other site 272630008930 D-loop; other site 272630008931 H-loop/switch region; other site 272630008932 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 272630008933 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630008934 active site 272630008935 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 272630008936 putative dimer interface [polypeptide binding]; other site 272630008937 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 272630008938 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630008939 ligand binding site [chemical binding]; other site 272630008940 flexible hinge region; other site 272630008941 Helix-turn-helix domains; Region: HTH; cl00088 272630008942 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630008943 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630008944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630008945 Switch II region; other site 272630008946 G4 box; other site 272630008947 BON domain; Region: BON; cl02771 272630008948 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 272630008949 Ligand Binding Site [chemical binding]; other site 272630008950 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 272630008951 ligand binding site [chemical binding]; other site 272630008952 flexible hinge region; other site 272630008953 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 272630008954 putative switch regulator; other site 272630008955 non-specific DNA interactions [nucleotide binding]; other site 272630008956 DNA binding site [nucleotide binding] 272630008957 sequence specific DNA binding site [nucleotide binding]; other site 272630008958 putative cAMP binding site [chemical binding]; other site 272630008959 response regulator FixJ; Provisional; Region: fixJ; PRK09390 272630008960 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 272630008961 active site 272630008962 phosphorylation site [posttranslational modification] 272630008963 intermolecular recognition site; other site 272630008964 dimerization interface [polypeptide binding]; other site 272630008965 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630008966 DNA binding residues [nucleotide binding] 272630008967 dimerization interface [polypeptide binding]; other site 272630008968 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 272630008969 PAS fold; Region: PAS_3; pfam08447 272630008970 putative active site [active] 272630008971 heme pocket [chemical binding]; other site 272630008972 PAS domain S-box; Region: sensory_box; TIGR00229 272630008973 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 272630008974 putative active site [active] 272630008975 heme pocket [chemical binding]; other site 272630008976 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 272630008977 dimer interface [polypeptide binding]; other site 272630008978 phosphorylation site [posttranslational modification] 272630008979 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 272630008980 ATP binding site [chemical binding]; other site 272630008981 Mg2+ binding site [ion binding]; other site 272630008982 G-X-G motif; other site 272630008983 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 272630008984 Ligand Binding Site [chemical binding]; other site 272630008985 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630008986 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 272630008987 active site 272630008988 phosphorylation site [posttranslational modification] 272630008989 intermolecular recognition site; other site 272630008990 dimerization interface [polypeptide binding]; other site 272630008991 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630008992 Zn2+ binding site [ion binding]; other site 272630008993 Mg2+ binding site [ion binding]; other site 272630008994 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 272630008995 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 272630008996 dimer interface [polypeptide binding]; other site 272630008997 phosphorylation site [posttranslational modification] 272630008998 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 272630008999 ATP binding site [chemical binding]; other site 272630009000 Mg2+ binding site [ion binding]; other site 272630009001 G-X-G motif; other site 272630009002 Response regulator receiver domain; Region: Response_reg; pfam00072 272630009003 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 272630009004 active site 272630009005 phosphorylation site [posttranslational modification] 272630009006 intermolecular recognition site; other site 272630009007 dimerization interface [polypeptide binding]; other site 272630009008 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; cl00086 272630009009 TadE-like protein; Region: TadE; cl10688 272630009010 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 272630009011 TadE-like protein; Region: TadE; cl10688 272630009012 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 272630009013 TadE-like protein; Region: TadE; cl10688 272630009014 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 272630009015 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630009016 tetramer interface [polypeptide binding]; other site 272630009017 catalytic Zn binding site [ion binding]; other site 272630009018 NADP binding site [chemical binding]; other site 272630009019 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 272630009020 active site 272630009021 DNA binding site [nucleotide binding] 272630009022 Int/Topo IB signature motif; other site 272630009023 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630009024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009025 Predicted transcriptional regulator [Transcription]; Region: COG1959 272630009026 Helix-turn-helix domains; Region: HTH; cl00088 272630009027 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 272630009028 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 272630009029 heme-binding site [chemical binding]; other site 272630009030 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 272630009031 FAD binding pocket [chemical binding]; other site 272630009032 FAD binding motif [chemical binding]; other site 272630009033 phosphate binding motif [ion binding]; other site 272630009034 beta-alpha-beta structure motif; other site 272630009035 NAD binding pocket [chemical binding]; other site 272630009036 Heme binding pocket [chemical binding]; other site 272630009037 PAS domain; Region: PAS_9; pfam13426 272630009038 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 272630009039 putative active site [active] 272630009040 heme pocket [chemical binding]; other site 272630009041 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272630009042 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 272630009043 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009044 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 272630009045 putative dimer interface [polypeptide binding]; other site 272630009046 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 272630009047 ligand binding site [chemical binding]; other site 272630009048 flexible hinge region; other site 272630009049 Helix-turn-helix domains; Region: HTH; cl00088 272630009050 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 272630009051 Ligand Binding Site [chemical binding]; other site 272630009052 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272630009053 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272630009054 Cytochrome c; Region: Cytochrom_C; cl11414 272630009055 potential protein location (Conserved hypothetical protein) that overlaps protein (Hypothetical protein) 272630009056 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 272630009057 E3 interaction surface; other site 272630009058 lipoyl attachment site [posttranslational modification]; other site 272630009059 Ion channel; Region: Ion_trans_2; cl11596 272630009060 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 272630009061 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272630009062 response regulator; Provisional; Region: PRK13435 272630009063 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 272630009064 BON domain; Region: BON; cl02771 272630009065 BON domain; Region: BON; cl02771 272630009066 BON domain; Region: BON; cl02771 272630009067 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630009068 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 272630009069 Ligand Binding Site [chemical binding]; other site 272630009070 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 272630009071 Ligand Binding Site [chemical binding]; other site 272630009072 Cytochrome c; Region: Cytochrom_C; cl11414 272630009073 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630009074 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 272630009075 Ligand Binding Site [chemical binding]; other site 272630009076 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 272630009077 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 272630009078 putative NAD(P) binding site [chemical binding]; other site 272630009079 putative substrate binding site [chemical binding]; other site 272630009080 catalytic Zn binding site [ion binding]; other site 272630009081 structural Zn binding site [ion binding]; other site 272630009082 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 272630009083 BON domain; Region: BON; cl02771 272630009084 BON domain; Region: BON; cl02771 272630009085 BON domain; Region: BON; cl02771 272630009086 putative phosphoketolase; Provisional; Region: PRK05261 272630009087 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 272630009088 TPP-binding site [chemical binding]; other site 272630009089 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 272630009090 XFP C-terminal domain; Region: XFP_C; pfam09363 272630009091 Acetokinase family; Region: Acetate_kinase; cl01029 272630009092 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630009093 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 272630009094 amphipathic channel; other site 272630009095 Asn-Pro-Ala signature motifs; other site 272630009096 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 272630009097 BON domain; Region: BON; cl02771 272630009098 BON domain; Region: BON; cl02771 272630009099 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 272630009100 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272630009101 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 272630009102 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272630009103 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630009104 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272630009105 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 272630009106 motif II; other site 272630009107 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272630009108 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 272630009109 Ligand Binding Site [chemical binding]; other site 272630009110 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 272630009111 ligand binding site [chemical binding]; other site 272630009112 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 272630009113 putative switch regulator; other site 272630009114 non-specific DNA interactions [nucleotide binding]; other site 272630009115 DNA binding site [nucleotide binding] 272630009116 sequence specific DNA binding site [nucleotide binding]; other site 272630009117 putative cAMP binding site [chemical binding]; other site 272630009118 Phasin protein; Region: Phasin_2; cl11491 272630009119 Response regulator receiver domain; Region: Response_reg; pfam00072 272630009120 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 272630009121 active site 272630009122 phosphorylation site [posttranslational modification] 272630009123 intermolecular recognition site; other site 272630009124 dimerization interface [polypeptide binding]; other site 272630009125 response regulator FixJ; Provisional; Region: fixJ; PRK09390 272630009126 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 272630009127 active site 272630009128 phosphorylation site [posttranslational modification] 272630009129 intermolecular recognition site; other site 272630009130 dimerization interface [polypeptide binding]; other site 272630009131 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630009132 DNA binding residues [nucleotide binding] 272630009133 dimerization interface [polypeptide binding]; other site 272630009134 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 272630009135 PAS fold; Region: PAS_3; pfam08447 272630009136 putative active site [active] 272630009137 heme pocket [chemical binding]; other site 272630009138 PAS domain S-box; Region: sensory_box; TIGR00229 272630009139 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 272630009140 putative active site [active] 272630009141 heme pocket [chemical binding]; other site 272630009142 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 272630009143 dimer interface [polypeptide binding]; other site 272630009144 phosphorylation site [posttranslational modification] 272630009145 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 272630009146 ATP binding site [chemical binding]; other site 272630009147 Mg2+ binding site [ion binding]; other site 272630009148 G-X-G motif; other site 272630009149 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 272630009150 Ligand Binding Site [chemical binding]; other site 272630009151 Cytochrome c; Region: Cytochrom_C; cl11414 272630009152 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630009153 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 272630009154 Ligand Binding Site [chemical binding]; other site 272630009155 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 272630009156 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630009157 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272630009158 putative catalytic site [active] 272630009159 putative metal binding site [ion binding]; other site 272630009160 putative phosphate binding site [ion binding]; other site 272630009161 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 272630009162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630009163 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630009164 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630009165 manganese transport regulator MntR; Provisional; Region: PRK11050 272630009166 Helix-turn-helix domains; Region: HTH; cl00088 272630009167 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272630009168 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 272630009169 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 272630009170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630009171 Helix-turn-helix domains; Region: HTH; cl00088 272630009172 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 272630009173 putative dimerization interface [polypeptide binding]; other site 272630009174 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; cl15357 272630009175 transmembrane helices; other site 272630009176 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 272630009177 Iron-sulfur protein interface; other site 272630009178 proximal quinone binding site [chemical binding]; other site 272630009179 SdhD (CybS) interface [polypeptide binding]; other site 272630009180 proximal heme binding site [chemical binding]; other site 272630009181 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 272630009182 putative SdhC subunit interface [polypeptide binding]; other site 272630009183 putative proximal heme binding site [chemical binding]; other site 272630009184 putative Iron-sulfur protein interface [polypeptide binding]; other site 272630009185 putative proximal quinone binding site; other site 272630009186 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 272630009187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009188 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272630009189 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 272630009190 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; cl00159 272630009191 Protease inhibitor Inh; Region: Inh; pfam02974 272630009192 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 272630009193 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 272630009194 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 272630009195 putative active site [active] 272630009196 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 272630009197 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630009198 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 272630009199 substrate binding site [chemical binding]; other site 272630009200 oxyanion hole (OAH) forming residues; other site 272630009201 trimer interface [polypeptide binding]; other site 272630009202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009203 NAD(P) binding site [chemical binding]; other site 272630009204 active site 272630009205 short chain dehydrogenase; Provisional; Region: PRK08278 272630009206 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 272630009207 NAD(P) binding site [chemical binding]; other site 272630009208 homodimer interface [polypeptide binding]; other site 272630009209 active site 272630009210 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272630009211 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272630009212 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 272630009213 dimerization interface [polypeptide binding]; other site 272630009214 metal binding site [ion binding]; metal-binding site 272630009215 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 272630009216 dimerization interface [polypeptide binding]; other site 272630009217 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272630009218 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630009219 dimer interface [polypeptide binding]; other site 272630009220 putative CheW interface [polypeptide binding]; other site 272630009221 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272630009222 endonuclease III; Region: ENDO3c; smart00478 272630009223 minor groove reading motif; other site 272630009224 helix-hairpin-helix signature motif; other site 272630009225 substrate binding pocket [chemical binding]; other site 272630009226 active site 272630009227 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272630009228 short chain dehydrogenase; Provisional; Region: PRK06197 272630009229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009230 NAD(P) binding site [chemical binding]; other site 272630009231 active site 272630009232 Fasciclin domain; Region: Fasciclin; cl02663 272630009233 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 272630009234 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009235 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009236 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 272630009237 GAF domain; Region: GAF_2; pfam13185 272630009238 GAF domain; Region: GAF; cl15785 272630009239 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 272630009240 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 272630009241 dimer interface [polypeptide binding]; other site 272630009242 conserved gate region; other site 272630009243 putative PBP binding loops; other site 272630009244 ABC-ATPase subunit interface; other site 272630009245 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272630009246 putative C-terminal domain interface [polypeptide binding]; other site 272630009247 putative GSH binding site (G-site) [chemical binding]; other site 272630009248 putative dimer interface [polypeptide binding]; other site 272630009249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630009250 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 272630009251 Walker A/P-loop; other site 272630009252 ATP binding site [chemical binding]; other site 272630009253 Q-loop/lid; other site 272630009254 ABC transporter signature motif; other site 272630009255 Walker B; other site 272630009256 D-loop; other site 272630009257 H-loop/switch region; other site 272630009258 TOBE domain; Region: TOBE_2; cl01440 272630009259 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 272630009260 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 272630009261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009262 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 272630009263 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009264 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009265 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630009266 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 272630009267 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630009268 Sulfate transporter family; Region: Sulfate_transp; cl15842 272630009269 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 272630009270 LrgB-like family; Region: LrgB; cl00596 272630009271 LrgA family; Region: LrgA; cl00608 272630009272 tellurium resistance terB-like protein; Region: terB_like; cl11965 272630009273 metal binding site [ion binding]; metal-binding site 272630009274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009275 OstA-like protein; Region: OstA; cl00844 272630009276 organic solvent tolerance protein; Provisional; Region: PRK04423 272630009277 Organic solvent tolerance protein; Region: OstA_C; pfam04453 272630009278 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272630009279 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272630009280 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272630009281 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272630009282 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 272630009283 interface (dimer of trimers) [polypeptide binding]; other site 272630009284 Substrate-binding/catalytic site; other site 272630009285 Zn-binding sites [ion binding]; other site 272630009286 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 272630009287 AMP-binding enzyme; Region: AMP-binding; cl15778 272630009288 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630009289 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 272630009290 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272630009291 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 272630009292 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272630009293 catalytic residues [active] 272630009294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630009295 Zn2+ binding site [ion binding]; other site 272630009296 Mg2+ binding site [ion binding]; other site 272630009297 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 272630009298 aspartate aminotransferase; Provisional; Region: PRK05764 272630009299 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 272630009300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630009301 homodimer interface [polypeptide binding]; other site 272630009302 catalytic residue [active] 272630009303 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 272630009304 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 272630009305 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 272630009306 AMIN domain; Region: AMIN; pfam11741 272630009307 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 272630009308 active site 272630009309 metal binding site [ion binding]; metal-binding site 272630009310 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 272630009311 Transglycosylase; Region: Transgly; cl07896 272630009312 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630009313 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 272630009314 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 272630009315 active site 272630009316 dimer interface [polypeptide binding]; other site 272630009317 non-prolyl cis peptide bond; other site 272630009318 insertion regions; other site 272630009319 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 272630009320 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 272630009321 Flavin binding site [chemical binding]; other site 272630009322 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 272630009323 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630009324 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272630009325 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272630009326 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630009327 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630009328 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630009329 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272630009330 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 272630009331 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272630009332 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; cl00161 272630009333 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 272630009334 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 272630009335 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 272630009336 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 272630009337 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 272630009338 Ligand binding site; other site 272630009339 DXD motif; other site 272630009340 integrase; Provisional; Region: PRK09692 272630009341 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 272630009342 active site 272630009343 Int/Topo IB signature motif; other site 272630009344 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272630009345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630009346 HNH endonuclease; Region: HNH_3; pfam13392 272630009347 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 272630009348 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 272630009349 DnaA box-binding interface [nucleotide binding]; other site 272630009350 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 272630009351 active site 272630009352 HNH endonuclease; Region: HNH_3; pfam13392 272630009353 NinB protein; Region: NinB; cl14671 272630009354 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272630009355 ParB-like nuclease domain; Region: ParBc; cl02129 272630009356 Endodeoxyribonuclease RusA; Region: RusA; cl01885 272630009357 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; cl15754 272630009358 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 272630009359 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 272630009360 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272630009361 nucleotide binding region [chemical binding]; other site 272630009362 ATP-binding site [chemical binding]; other site 272630009363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 272630009364 CHC2 zinc finger; Region: zf-CHC2; cl15369 272630009365 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 272630009366 active site 272630009367 metal binding site [ion binding]; metal-binding site 272630009368 interdomain interaction site; other site 272630009369 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272630009370 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 272630009371 Phage terminase large subunit; Region: Terminase_3; cl12054 272630009372 Terminase-like family; Region: Terminase_6; pfam03237 272630009373 HNH endonuclease; Region: HNH_3; pfam13392 272630009374 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 272630009375 P22 coat protein - gene protein 5; Region: P22_CoatProtein; cl10302 272630009376 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272630009377 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 272630009378 Phage Tail Collar Domain; Region: Collar; pfam07484 272630009379 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 272630009380 catalytic residues [active] 272630009381 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272630009382 P63C domain; Region: P63C; pfam10546 272630009383 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272630009384 active site 272630009385 metal binding site [ion binding]; metal-binding site 272630009386 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 272630009387 Right handed beta helix region; Region: Beta_helix; pfam13229 272630009388 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272630009389 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 272630009390 substrate binding site; other site 272630009391 tetramer interface; other site 272630009392 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272630009393 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272630009394 NADP binding site [chemical binding]; other site 272630009395 active site 272630009396 putative substrate binding site [chemical binding]; other site 272630009397 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272630009398 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272630009399 NAD binding site [chemical binding]; other site 272630009400 substrate binding site [chemical binding]; other site 272630009401 homodimer interface [polypeptide binding]; other site 272630009402 active site 272630009403 Cupin domain; Region: Cupin_2; cl09118 272630009404 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 272630009405 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 272630009406 non-specific DNA binding site [nucleotide binding]; other site 272630009407 salt bridge; other site 272630009408 sequence-specific DNA binding site [nucleotide binding]; other site 272630009409 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 272630009410 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 272630009411 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272630009412 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 272630009413 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 272630009414 active site 272630009415 Int/Topo IB signature motif; other site 272630009416 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 272630009417 allophanate hydrolase; Provisional; Region: PRK08186 272630009418 Amidase; Region: Amidase; cl11426 272630009419 urea carboxylase; Region: urea_carbox; TIGR02712 272630009420 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272630009421 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630009422 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272630009423 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 272630009424 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 272630009425 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 272630009426 carboxyltransferase (CT) interaction site; other site 272630009427 biotinylation site [posttranslational modification]; other site 272630009428 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 272630009429 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272630009430 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 272630009431 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 272630009432 Cupin domain; Region: Cupin_2; cl09118 272630009433 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 272630009434 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272630009435 Creatinine amidohydrolase; Region: Creatininase; cl00618 272630009436 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630009437 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630009438 Walker A/P-loop; other site 272630009439 ATP binding site [chemical binding]; other site 272630009440 Q-loop/lid; other site 272630009441 ABC transporter signature motif; other site 272630009442 Walker B; other site 272630009443 D-loop; other site 272630009444 H-loop/switch region; other site 272630009445 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 272630009446 dimer interface [polypeptide binding]; other site 272630009447 conserved gate region; other site 272630009448 putative PBP binding loops; other site 272630009449 ABC-ATPase subunit interface; other site 272630009450 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272630009451 NMT1-like family; Region: NMT1_2; cl15260 272630009452 ykkC-yxkD element; MexAM1_META1pmiscRNA8 272630009453 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 272630009454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630009455 Walker A/P-loop; other site 272630009456 ATP binding site [chemical binding]; other site 272630009457 Q-loop/lid; other site 272630009458 ABC transporter signature motif; other site 272630009459 Walker B; other site 272630009460 D-loop; other site 272630009461 H-loop/switch region; other site 272630009462 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 272630009463 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 272630009464 dimer interface [polypeptide binding]; other site 272630009465 conserved gate region; other site 272630009466 putative PBP binding loops; other site 272630009467 ABC-ATPase subunit interface; other site 272630009468 NMT1-like family; Region: NMT1_2; cl15260 272630009469 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 272630009470 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 272630009471 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 272630009472 conserved cys residue [active] 272630009473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630009474 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 272630009475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009476 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 272630009477 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 272630009478 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; cl00159 272630009479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630009480 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272630009481 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272630009482 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272630009483 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 272630009484 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272630009485 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 272630009486 Uncharacterized conserved protein [Function unknown]; Region: COG3760 272630009487 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 272630009488 putative deacylase active site [active] 272630009489 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630009490 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272630009491 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272630009492 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 272630009493 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272630009494 4Fe-4S binding domain; Region: Fer4; cl02805 272630009495 Cysteine-rich domain; Region: CCG; pfam02754 272630009496 Cysteine-rich domain; Region: CCG; pfam02754 272630009497 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 272630009498 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 272630009499 putative active site [active] 272630009500 putative FMN binding site [chemical binding]; other site 272630009501 putative substrate binding site [chemical binding]; other site 272630009502 putative catalytic residue [active] 272630009503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630009504 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 272630009505 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 272630009506 FAD binding pocket [chemical binding]; other site 272630009507 FAD binding motif [chemical binding]; other site 272630009508 phosphate binding motif [ion binding]; other site 272630009509 beta-alpha-beta structure motif; other site 272630009510 NAD binding pocket [chemical binding]; other site 272630009511 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 272630009512 catalytic loop [active] 272630009513 iron binding site [ion binding]; other site 272630009514 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 272630009515 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 272630009516 [2Fe-2S] cluster binding site [ion binding]; other site 272630009517 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 272630009518 putative alpha subunit interface [polypeptide binding]; other site 272630009519 putative active site [active] 272630009520 putative substrate binding site [chemical binding]; other site 272630009521 Fe binding site [ion binding]; other site 272630009522 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 272630009523 active site 272630009524 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 272630009525 Phosphotransferase enzyme family; Region: APH; pfam01636 272630009526 active site 272630009527 ATP binding site [chemical binding]; other site 272630009528 substrate binding site [chemical binding]; other site 272630009529 dimer interface [polypeptide binding]; other site 272630009530 Phosphotransferase enzyme family; Region: APH; pfam01636 272630009531 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630009532 active site 272630009533 ATP binding site [chemical binding]; other site 272630009534 substrate binding site [chemical binding]; other site 272630009535 allantoate amidohydrolase; Reviewed; Region: PRK09290 272630009536 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 272630009537 active site 272630009538 metal binding site [ion binding]; metal-binding site 272630009539 dimer interface [polypeptide binding]; other site 272630009540 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 272630009541 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272630009542 Walker A/P-loop; other site 272630009543 ATP binding site [chemical binding]; other site 272630009544 Q-loop/lid; other site 272630009545 ABC transporter signature motif; other site 272630009546 Walker B; other site 272630009547 D-loop; other site 272630009548 H-loop/switch region; other site 272630009549 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272630009550 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 272630009551 Walker A/P-loop; other site 272630009552 ATP binding site [chemical binding]; other site 272630009553 Q-loop/lid; other site 272630009554 ABC transporter signature motif; other site 272630009555 Walker B; other site 272630009556 D-loop; other site 272630009557 H-loop/switch region; other site 272630009558 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272630009559 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272630009560 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 272630009561 dimer interface [polypeptide binding]; other site 272630009562 conserved gate region; other site 272630009563 putative PBP binding loops; other site 272630009564 ABC-ATPase subunit interface; other site 272630009565 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272630009566 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 272630009567 dimer interface [polypeptide binding]; other site 272630009568 conserved gate region; other site 272630009569 putative PBP binding loops; other site 272630009570 ABC-ATPase subunit interface; other site 272630009571 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 272630009572 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272630009573 Secretin and TonB N terminus short domain; Region: STN; cl06624 272630009574 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 272630009575 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 272630009576 N-terminal plug; other site 272630009577 ligand-binding site [chemical binding]; other site 272630009578 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 272630009579 FecR protein; Region: FecR; pfam04773 272630009580 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 272630009581 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630009582 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 272630009583 DNA binding residues [nucleotide binding] 272630009584 IucA / IucC family; Region: IucA_IucC; pfam04183 272630009585 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 272630009586 IucA / IucC family; Region: IucA_IucC; pfam04183 272630009587 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 272630009588 acyl-CoA synthetase; Validated; Region: PRK08308 272630009589 AMP-binding enzyme; Region: AMP-binding; cl15778 272630009590 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630009591 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 272630009592 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272630009593 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 272630009594 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272630009595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630009596 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630009597 Coenzyme A binding pocket [chemical binding]; other site 272630009598 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630009599 TetR family transcriptional regulator; Provisional; Region: PRK14996 272630009600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009601 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 272630009602 Membrane fusogenic activity; Region: BMFP; cl01115 272630009603 osmolarity response regulator; Provisional; Region: ompR; PRK09468 272630009604 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 272630009605 active site 272630009606 phosphorylation site [posttranslational modification] 272630009607 intermolecular recognition site; other site 272630009608 dimerization interface [polypeptide binding]; other site 272630009609 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 272630009610 DNA binding site [nucleotide binding] 272630009611 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 272630009612 dimer interface [polypeptide binding]; other site 272630009613 phosphorylation site [posttranslational modification] 272630009614 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 272630009615 ATP binding site [chemical binding]; other site 272630009616 Mg2+ binding site [ion binding]; other site 272630009617 G-X-G motif; other site 272630009618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630009619 metal binding site [ion binding]; metal-binding site 272630009620 active site 272630009621 I-site; other site 272630009622 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 272630009623 putative C-terminal domain interface [polypeptide binding]; other site 272630009624 putative GSH binding site (G-site) [chemical binding]; other site 272630009625 putative dimer interface [polypeptide binding]; other site 272630009626 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 272630009627 putative N-terminal domain interface [polypeptide binding]; other site 272630009628 putative substrate binding pocket (H-site) [chemical binding]; other site 272630009629 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 272630009630 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272630009631 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 272630009632 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630009633 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 272630009634 active site 272630009635 phosphorylation site [posttranslational modification] 272630009636 intermolecular recognition site; other site 272630009637 dimerization interface [polypeptide binding]; other site 272630009638 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 272630009639 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 272630009640 putative active site [active] 272630009641 putative dimer interface [polypeptide binding]; other site 272630009642 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272630009643 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 272630009644 putative active site [active] 272630009645 putative catalytic site [active] 272630009646 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 272630009647 putative active site [active] 272630009648 putative catalytic site [active] 272630009649 YGGT family; Region: YGGT; cl00508 272630009650 potential frameshift: common BLAST hit: gi|188583379|ref|YP_001926824.1| protein of unknown function DUF159 272630009651 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 272630009652 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 272630009653 GAF domain; Region: GAF; cl15785 272630009654 PAS domain; Region: PAS_9; pfam13426 272630009655 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630009656 metal binding site [ion binding]; metal-binding site 272630009657 active site 272630009658 I-site; other site 272630009659 GAF domain; Region: GAF; cl15785 272630009660 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272630009661 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 272630009662 NMT1-like family; Region: NMT1_2; cl15260 272630009663 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630009664 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 272630009665 PAS fold; Region: PAS_4; pfam08448 272630009666 PAS domain S-box; Region: sensory_box; TIGR00229 272630009667 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 272630009668 PAS domain S-box; Region: sensory_box; TIGR00229 272630009669 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630009670 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630009671 DNA binding residues [nucleotide binding] 272630009672 dimerization interface [polypeptide binding]; other site 272630009673 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 272630009674 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 272630009675 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 272630009676 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009677 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 272630009678 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 272630009679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630009680 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009681 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009682 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630009684 Helix-turn-helix domains; Region: HTH; cl00088 272630009685 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 272630009686 dimerization interface [polypeptide binding]; other site 272630009687 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 272630009688 GAF domain; Region: GAF; cl15785 272630009689 GAF domain; Region: GAF_2; pfam13185 272630009690 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630009691 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 272630009692 PAS domain; Region: PAS_9; pfam13426 272630009693 putative active site [active] 272630009694 heme pocket [chemical binding]; other site 272630009695 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 272630009696 PAS domain; Region: PAS_9; pfam13426 272630009697 putative active site [active] 272630009698 heme pocket [chemical binding]; other site 272630009699 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 272630009700 PAS domain; Region: PAS_9; pfam13426 272630009701 putative active site [active] 272630009702 heme pocket [chemical binding]; other site 272630009703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630009704 dimer interface [polypeptide binding]; other site 272630009705 putative CheW interface [polypeptide binding]; other site 272630009706 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630009707 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 272630009708 protein binding site [polypeptide binding]; other site 272630009709 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 272630009710 protein binding site [polypeptide binding]; other site 272630009711 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 272630009712 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 272630009713 Cl- selectivity filter; other site 272630009714 Cl- binding residues [ion binding]; other site 272630009715 pore gating glutamate residue; other site 272630009716 dimer interface [polypeptide binding]; other site 272630009717 H+/Cl- coupling transport residue; other site 272630009718 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630009719 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630009720 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009721 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272630009722 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272630009723 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272630009724 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272630009725 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 272630009726 dimerization interface [polypeptide binding]; other site 272630009727 putative DNA binding site [nucleotide binding]; other site 272630009728 putative Zn2+ binding site [ion binding]; other site 272630009729 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272630009730 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630009731 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 272630009732 dimer interface [polypeptide binding]; other site 272630009733 peroxiredoxin; Provisional; Region: PRK13189 272630009734 decamer (pentamer of dimers) interface [polypeptide binding]; other site 272630009735 catalytic triad [active] 272630009736 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272630009737 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 272630009738 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630009739 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 272630009740 Metal binding protein HemV-2. 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: HemV-2; cd01147 272630009741 putative metal binding site [ion binding]; other site 272630009742 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 272630009743 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 272630009744 ABC-ATPase subunit interface; other site 272630009745 dimer interface [polypeptide binding]; other site 272630009746 putative PBP binding regions; other site 272630009747 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272630009748 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 272630009749 Walker A/P-loop; other site 272630009750 ATP binding site [chemical binding]; other site 272630009751 Q-loop/lid; other site 272630009752 ABC transporter signature motif; other site 272630009753 Walker B; other site 272630009754 D-loop; other site 272630009755 H-loop/switch region; other site 272630009756 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 272630009757 Moco binding site; other site 272630009758 metal coordination site [ion binding]; other site 272630009759 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 272630009760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009761 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630009762 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272630009763 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 272630009764 active site 272630009765 catalytic tetrad [active] 272630009766 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 272630009767 catalytic triad [active] 272630009768 conserved cis-peptide bond; other site 272630009769 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630009770 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009771 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272630009772 RMQ06452 Microarray probe; Evidence 7 : Gene remnant 272630009773 RMQ06450 Microarray probe; Evidence 7 : Gene remnant 272630009774 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 272630009775 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 272630009776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009777 RMQ02712 Microarray probe; Evidence 7 : Gene remnant 272630009778 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 272630009779 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272630009780 active site 272630009781 catalytic tetrad [active] 272630009782 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; cl15754 272630009783 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272630009784 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 272630009785 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 272630009786 active site 272630009787 RMQ05048 Microarray; Evidence 7 : Gene remnant 272630009788 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630009789 Helix-turn-helix domains; Region: HTH; cl00088 272630009790 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 272630009791 ArsC family; Region: ArsC; pfam03960 272630009792 catalytic residues [active] 272630009793 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 272630009794 Membrane transport protein; Region: Mem_trans; cl09117 272630009795 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 272630009796 PAS domain; Region: PAS_9; pfam13426 272630009797 putative active site [active] 272630009798 heme pocket [chemical binding]; other site 272630009799 PAS fold; Region: PAS_7; pfam12860 272630009800 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630009801 metal binding site [ion binding]; metal-binding site 272630009802 active site 272630009803 I-site; other site 272630009804 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 272630009805 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630009806 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272630009807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009808 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 272630009809 NAD(P) binding site [chemical binding]; other site 272630009810 active site 272630009811 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 272630009812 nucleoside/Zn binding site; other site 272630009813 dimer interface [polypeptide binding]; other site 272630009814 catalytic motif [active] 272630009815 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272630009816 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272630009817 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630009818 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272630009819 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272630009820 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 272630009821 generic binding surface II; other site 272630009822 generic binding surface I; other site 272630009823 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 272630009824 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272630009825 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272630009826 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630009827 active site 272630009828 transcription elongation factor regulatory protein; Validated; Region: PRK06342 272630009829 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272630009830 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 272630009831 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 272630009832 NADP binding site [chemical binding]; other site 272630009833 dimer interface [polypeptide binding]; other site 272630009834 Ferredoxin [Energy production and conversion]; Region: COG1146 272630009835 4Fe-4S binding domain; Region: Fer4; cl02805 272630009836 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 272630009837 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272630009838 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 272630009839 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630009840 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630009841 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 272630009842 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 272630009843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009845 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272630009846 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630009847 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 272630009848 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272630009849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630009850 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 272630009851 DNA binding residues [nucleotide binding] 272630009852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 272630009853 Anti-sigma-K factor rskA; Region: RskA; pfam10099 272630009854 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630009855 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272630009856 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272630009857 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 272630009858 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 272630009859 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630009860 putative CheW interface [polypeptide binding]; other site 272630009861 Nitrate and nitrite sensing; Region: NIT; pfam08376 272630009862 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630009863 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630009864 dimer interface [polypeptide binding]; other site 272630009865 putative CheW interface [polypeptide binding]; other site 272630009866 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630009867 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009868 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009869 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630009870 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 272630009871 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; cl09944 272630009872 active site 272630009873 phosphorylation site [posttranslational modification] 272630009874 intermolecular recognition site; other site 272630009875 dimerization interface [polypeptide binding]; other site 272630009876 GAF domain; Region: GAF; cl15785 272630009877 putative diguanylate cyclase; Provisional; Region: PRK09776 272630009878 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 272630009879 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 272630009880 PAS fold; Region: PAS_3; pfam08447 272630009881 putative active site [active] 272630009882 heme pocket [chemical binding]; other site 272630009883 PAS domain S-box; Region: sensory_box; TIGR00229 272630009884 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 272630009885 putative active site [active] 272630009886 heme pocket [chemical binding]; other site 272630009887 GAF domain; Region: GAF; cl15785 272630009888 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630009889 Histidine kinase; Region: HisKA_2; cl06527 272630009890 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630009891 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; cl00047 272630009892 ligand binding site [chemical binding]; other site 272630009893 flexible hinge region; other site 272630009894 Helix-turn-helix domains; Region: HTH; cl00088 272630009895 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 272630009896 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 272630009897 active site 272630009898 Protein of unknown function, DUF488; Region: DUF488; cl01246 272630009899 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 272630009900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009901 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 272630009902 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 272630009903 NADP binding site [chemical binding]; other site 272630009904 dimer interface [polypeptide binding]; other site 272630009905 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 272630009906 Isochorismatase family; Region: Isochorismatase; pfam00857 272630009907 catalytic triad [active] 272630009908 metal binding site [ion binding]; metal-binding site 272630009909 conserved cis-peptide bond; other site 272630009910 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 272630009911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630009912 catalytic residue [active] 272630009913 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272630009914 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272630009915 glutamine binding [chemical binding]; other site 272630009916 catalytic triad [active] 272630009917 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272630009918 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 272630009919 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272630009920 RelB antitoxin; Region: RelB; cl01171 272630009921 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630009922 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 272630009923 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272630009924 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 272630009925 FeS/SAM binding site; other site 272630009926 Predicted membrane protein [Function unknown]; Region: COG4270 272630009927 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 272630009928 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272630009929 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272630009930 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 272630009931 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272630009932 active site 272630009933 nucleophile elbow; other site 272630009934 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; cl09155 272630009935 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 272630009936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630009937 metal binding site [ion binding]; metal-binding site 272630009938 active site 272630009939 I-site; other site 272630009940 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630009941 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009942 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630009943 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272630009944 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630009945 Zn2+ binding site [ion binding]; other site 272630009946 Mg2+ binding site [ion binding]; other site 272630009947 Arginase family; Region: Arginase; cl00306 272630009948 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630009949 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272630009950 Flavoprotein; Region: Flavoprotein; cl08021 272630009951 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 272630009952 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630009953 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272630009954 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630009955 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630009956 ATP binding site [chemical binding]; other site 272630009957 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 272630009958 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 272630009959 S-adenosylmethionine binding site [chemical binding]; other site 272630009960 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; cl00161 272630009961 folate binding site [chemical binding]; other site 272630009962 NADP+ binding site [chemical binding]; other site 272630009963 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630009964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630009965 NAD(P) binding site [chemical binding]; other site 272630009966 active site 272630009967 amidophosphoribosyltransferase; Provisional; Region: PRK09123 272630009968 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 272630009969 active site 272630009970 tetramer interface [polypeptide binding]; other site 272630009971 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272630009972 active site 272630009973 Colicin V production protein; Region: Colicin_V; cl00567 272630009974 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630009975 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 272630009976 Cu(I) binding site [ion binding]; other site 272630009977 DNA repair protein RadA; Provisional; Region: PRK11823 272630009978 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 272630009979 Walker A motif/ATP binding site; other site 272630009980 ATP binding site [chemical binding]; other site 272630009981 Walker B motif; other site 272630009982 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272630009983 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272630009984 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272630009985 active site 272630009986 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272630009987 dimer interface [polypeptide binding]; other site 272630009988 substrate binding site [chemical binding]; other site 272630009989 catalytic residues [active] 272630009990 replicative DNA helicase; Provisional; Region: PRK09165 272630009991 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272630009992 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 272630009993 Walker A motif; other site 272630009994 ATP binding site [chemical binding]; other site 272630009995 Walker B motif; other site 272630009996 DNA binding loops [nucleotide binding] 272630009997 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272630009998 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272630009999 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272630010000 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 272630010001 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 272630010002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630010003 Coenzyme A binding pocket [chemical binding]; other site 272630010004 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 272630010005 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 protein; Region: CSP_CDS; cd04458 272630010006 DNA-binding site [nucleotide binding]; DNA binding site 272630010007 RNA-binding motif; other site 272630010008 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 272630010009 active site 272630010010 catalytic residues [active] 272630010011 metal binding site [ion binding]; metal-binding site 272630010012 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272630010013 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 272630010014 N-terminal plug; other site 272630010015 ligand-binding site [chemical binding]; other site 272630010016 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 272630010017 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272630010018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630010019 Citrate transporter; Region: CitMHS; pfam03600 272630010020 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 272630010021 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272630010022 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 272630010023 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 272630010024 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630010025 NAD(P) binding site [chemical binding]; other site 272630010026 active site 272630010027 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 272630010028 Aspartase; Region: Aspartase; cd01357 272630010029 active sites [active] 272630010030 tetramer interface [polypeptide binding]; other site 272630010031 Porin subfamily; Region: Porin_2; pfam02530 272630010032 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 272630010033 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 272630010034 substrate binding pocket [chemical binding]; other site 272630010035 membrane-bound complex binding site; other site 272630010036 hinge residues; other site 272630010037 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272630010038 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 272630010039 dimer interface [polypeptide binding]; other site 272630010040 conserved gate region; other site 272630010041 putative PBP binding loops; other site 272630010042 ABC-ATPase subunit interface; other site 272630010043 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272630010044 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 272630010045 dimer interface [polypeptide binding]; other site 272630010046 conserved gate region; other site 272630010047 putative PBP binding loops; other site 272630010048 ABC-ATPase subunit interface; other site 272630010049 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272630010050 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 272630010051 Walker A/P-loop; other site 272630010052 ATP binding site [chemical binding]; other site 272630010053 Q-loop/lid; other site 272630010054 ABC transporter signature motif; other site 272630010055 Walker B; other site 272630010056 D-loop; other site 272630010057 H-loop/switch region; other site 272630010058 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630010059 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630010060 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 272630010061 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 272630010062 transmembrane helices; other site 272630010063 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 272630010064 nudix motif; other site 272630010065 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 272630010066 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 272630010067 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272630010068 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 272630010069 AMP-binding enzyme; Region: AMP-binding; cl15778 272630010070 AMP-binding enzyme; Region: AMP-binding; cl15778 272630010071 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630010072 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 272630010073 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 272630010074 putative trimer interface [polypeptide binding]; other site 272630010075 putative CoA binding site [chemical binding]; other site 272630010076 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 272630010077 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 272630010078 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 272630010079 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272630010080 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630010081 catalytic residue [active] 272630010082 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272630010083 putative ABC transporter; Region: ycf24; CHL00085 272630010084 FeS assembly ATPase SufC; Region: sufC; TIGR01978 272630010085 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 272630010086 Walker A/P-loop; other site 272630010087 ATP binding site [chemical binding]; other site 272630010088 Q-loop/lid; other site 272630010089 ABC transporter signature motif; other site 272630010090 Walker B; other site 272630010091 D-loop; other site 272630010092 H-loop/switch region; other site 272630010093 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272630010094 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272630010095 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 272630010096 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630010097 catalytic residue [active] 272630010098 Domain of unknown function DUF59; Region: DUF59; cl00941 272630010099 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272630010100 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630010101 metal binding site [ion binding]; metal-binding site 272630010102 active site 272630010103 I-site; other site 272630010104 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 272630010105 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272630010106 ATP binding site [chemical binding]; other site 272630010107 Mg++ binding site [ion binding]; other site 272630010108 motif III; other site 272630010109 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 272630010110 nucleotide binding region [chemical binding]; other site 272630010111 ATP-binding site [chemical binding]; other site 272630010112 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630010113 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 272630010114 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272630010115 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630010116 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 272630010117 motif II; other site 272630010118 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 272630010119 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 272630010120 Walker A/P-loop; other site 272630010121 ATP binding site [chemical binding]; other site 272630010122 Q-loop/lid; other site 272630010123 ABC transporter signature motif; other site 272630010124 Walker B; other site 272630010125 D-loop; other site 272630010126 H-loop/switch region; other site 272630010127 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 272630010128 active site 272630010129 catalytic triad [active] 272630010130 oxyanion hole [active] 272630010131 switch loop; other site 272630010132 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 272630010133 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 272630010134 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 272630010135 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 272630010136 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272630010137 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272630010138 putative homodimer interface [polypeptide binding]; other site 272630010139 KOW motif; Region: KOW; cl00354 272630010140 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272630010141 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 272630010142 23S rRNA interface [nucleotide binding]; other site 272630010143 L7/L12 interface [polypeptide binding]; other site 272630010144 putative thiostrepton binding site; other site 272630010145 L25 interface [polypeptide binding]; other site 272630010146 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 272630010147 mRNA/rRNA interface [nucleotide binding]; other site 272630010148 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272630010149 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 272630010150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630010151 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 272630010152 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 272630010153 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630010154 Probable Catalytic site; other site 272630010155 metal-binding site 272630010156 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272630010157 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 272630010158 dimer interface [polypeptide binding]; other site 272630010159 anticodon binding site; other site 272630010160 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630010161 motif 1; other site 272630010162 dimer interface [polypeptide binding]; other site 272630010163 active site 272630010164 motif 2; other site 272630010165 GAD domain; Region: GAD; pfam02938 272630010166 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 attaches...; Region: class_II_aaRS-like_core; cl00268 272630010167 active site 272630010168 motif 3; other site 272630010169 biotin synthase; Region: bioB; TIGR00433 272630010170 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 272630010171 FeS/SAM binding site; other site 272630010172 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272630010173 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272630010174 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630010175 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 272630010176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010177 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 272630010178 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 272630010179 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 272630010180 putative active site [active] 272630010181 heme pocket [chemical binding]; other site 272630010182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630010183 metal binding site [ion binding]; metal-binding site 272630010184 active site 272630010185 I-site; other site 272630010186 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 272630010187 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 272630010188 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 272630010189 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 272630010190 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 272630010191 23S rRNA interface [nucleotide binding]; other site 272630010192 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272630010193 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 272630010194 L11 interface [polypeptide binding]; other site 272630010195 putative EF-Tu interaction site [polypeptide binding]; other site 272630010196 putative EF-G interaction site [polypeptide binding]; other site 272630010197 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; cl04593 272630010198 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272630010199 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 272630010200 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 272630010201 RPB11 interaction site [polypeptide binding]; other site 272630010202 RPB12 interaction site [polypeptide binding]; other site 272630010203 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 272630010204 RPB3 interaction site [polypeptide binding]; other site 272630010205 RPB1 interaction site [polypeptide binding]; other site 272630010206 RPB11 interaction site [polypeptide binding]; other site 272630010207 RPB10 interaction site [polypeptide binding]; other site 272630010208 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272630010209 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 272630010210 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 272630010211 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272630010212 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 272630010213 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272630010214 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 272630010215 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 272630010216 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 272630010217 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272630010218 DNA binding site [nucleotide binding] 272630010219 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272630010220 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 272630010221 homotrimer interaction site [polypeptide binding]; other site 272630010222 putative active site [active] 272630010223 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 272630010224 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 272630010225 NmrA-like family; Region: NmrA; pfam05368 272630010226 NADP binding site [chemical binding]; other site 272630010227 Helix-turn-helix domains; Region: HTH; cl00088 272630010228 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 272630010229 putative C-terminal domain interface [polypeptide binding]; other site 272630010230 putative GSH binding site (G-site) [chemical binding]; other site 272630010231 putative dimer interface [polypeptide binding]; other site 272630010232 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 272630010233 dimer interface [polypeptide binding]; other site 272630010234 N-terminal domain interface [polypeptide binding]; other site 272630010235 putative substrate binding pocket (H-site) [chemical binding]; other site 272630010236 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 272630010237 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 272630010238 N-terminal plug; other site 272630010239 ligand-binding site [chemical binding]; other site 272630010240 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272630010241 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 272630010242 RNase E interface [polypeptide binding]; other site 272630010243 trimer interface [polypeptide binding]; other site 272630010244 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272630010245 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 272630010246 RNase E interface [polypeptide binding]; other site 272630010247 trimer interface [polypeptide binding]; other site 272630010248 active site 272630010249 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 272630010250 putative nucleic acid binding region [nucleotide binding]; other site 272630010251 G-X-X-G motif; other site 272630010252 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 272630010253 RNA binding site [nucleotide binding]; other site 272630010254 domain interface; other site 272630010255 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 272630010256 16S/18S rRNA binding site [nucleotide binding]; other site 272630010257 S13e-L30e interaction site [polypeptide binding]; other site 272630010258 25S rRNA binding site [nucleotide binding]; other site 272630010259 Spore germination protein; Region: Spore_permease; cl15802 272630010260 amino acid transporter; Region: 2A0306; TIGR00909 272630010261 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 272630010262 putative catalytic site [active] 272630010263 putative phosphate binding site [ion binding]; other site 272630010264 active site 272630010265 metal binding site A [ion binding]; metal-binding site 272630010266 DNA binding site [nucleotide binding] 272630010267 putative AP binding site [nucleotide binding]; other site 272630010268 putative metal binding site B [ion binding]; other site 272630010269 Sensors of blue-light using FAD; Region: BLUF; cl04855 272630010270 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630010271 metal binding site [ion binding]; metal-binding site 272630010272 active site 272630010273 I-site; other site 272630010274 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 272630010275 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 272630010276 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010277 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272630010278 NAD synthetase; Reviewed; Region: nadE; PRK02628 272630010279 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 272630010280 multimer interface [polypeptide binding]; other site 272630010281 active site 272630010282 catalytic triad [active] 272630010283 protein interface 1 [polypeptide binding]; other site 272630010284 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 272630010285 homodimer interface [polypeptide binding]; other site 272630010286 NAD binding pocket [chemical binding]; other site 272630010287 ATP binding pocket [chemical binding]; other site 272630010288 Mg binding site [ion binding]; other site 272630010289 active-site loop [active] 272630010290 response regulator; Provisional; Region: PRK13435 272630010291 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 272630010292 active site 272630010293 phosphorylation site [posttranslational modification] 272630010294 intermolecular recognition site; other site 272630010295 dimerization interface [polypeptide binding]; other site 272630010296 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 272630010297 PAS domain; Region: PAS_9; pfam13426 272630010298 putative active site [active] 272630010299 heme pocket [chemical binding]; other site 272630010300 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630010301 Histidine kinase; Region: HisKA_2; cl06527 272630010302 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 272630010303 ATP binding site [chemical binding]; other site 272630010304 Mg2+ binding site [ion binding]; other site 272630010305 G-X-G motif; other site 272630010306 AmpG-related permease; Region: 2A0125; TIGR00901 272630010307 muropeptide transporter; Validated; Region: ampG; PRK11010 272630010308 EcsC protein family; Region: EcsC; pfam12787 272630010309 Phospholipid methyltransferase; Region: PEMT; cl00763 272630010310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 272630010311 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 272630010312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 272630010313 GTP-binding protein Der; Reviewed; Region: PRK00093 272630010314 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 272630010315 G1 box; other site 272630010316 GTP/Mg2+ binding site [chemical binding]; other site 272630010317 Switch I region; other site 272630010318 G2 box; other site 272630010319 Switch II region; other site 272630010320 G3 box; other site 272630010321 G4 box; other site 272630010322 G5 box; other site 272630010323 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 272630010324 G1 box; other site 272630010325 GTP/Mg2+ binding site [chemical binding]; other site 272630010326 Switch I region; other site 272630010327 G2 box; other site 272630010328 G3 box; other site 272630010329 Switch II region; other site 272630010330 G4 box; other site 272630010331 G5 box; other site 272630010332 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272630010333 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272630010334 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 272630010335 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 272630010336 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 272630010337 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 272630010338 DNA binding site [nucleotide binding] 272630010339 catalytic residue [active] 272630010340 H2TH interface [polypeptide binding]; other site 272630010341 putative catalytic residues [active] 272630010342 turnover-facilitating residue; other site 272630010343 intercalation triad [nucleotide binding]; other site 272630010344 8OG recognition residue [nucleotide binding]; other site 272630010345 putative reading head residues; other site 272630010346 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272630010347 Predicted transcriptional regulator [Transcription]; Region: COG1959 272630010348 Helix-turn-helix domains; Region: HTH; cl00088 272630010349 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272630010350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010352 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 272630010353 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630010354 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 272630010355 putative diguanylate cyclase; Provisional; Region: PRK09776 272630010356 PAS fold; Region: PAS_4; pfam08448 272630010357 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272630010358 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 272630010359 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 272630010360 dimer interface [polypeptide binding]; other site 272630010361 phosphorylation site [posttranslational modification] 272630010362 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 272630010363 ATP binding site [chemical binding]; other site 272630010364 Mg2+ binding site [ion binding]; other site 272630010365 G-X-G motif; other site 272630010366 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630010367 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 272630010368 active site 272630010369 phosphorylation site [posttranslational modification] 272630010370 intermolecular recognition site; other site 272630010371 dimerization interface [polypeptide binding]; other site 272630010372 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630010373 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 272630010374 GSH binding site (G-site) [chemical binding]; other site 272630010375 C-terminal domain interface [polypeptide binding]; other site 272630010376 dimer interface [polypeptide binding]; other site 272630010377 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 272630010378 dimer interface [polypeptide binding]; other site 272630010379 N-terminal domain interface [polypeptide binding]; other site 272630010380 substrate binding pocket (H-site) [chemical binding]; other site 272630010381 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 272630010382 excinuclease ABC subunit B; Provisional; Region: PRK05298 272630010383 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 272630010384 ATP binding site [chemical binding]; other site 272630010385 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 272630010386 nucleotide binding region [chemical binding]; other site 272630010387 ATP-binding site [chemical binding]; other site 272630010388 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272630010389 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630010390 Helix-turn-helix domains; Region: HTH; cl00088 272630010391 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 272630010392 putative effector binding pocket; other site 272630010393 dimerization interface [polypeptide binding]; other site 272630010394 DoxX; Region: DoxX; cl00976 272630010395 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_12; cd07255 272630010396 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630010397 putative metal binding site [ion binding]; other site 272630010398 Helix-turn-helix domains; Region: HTH; cl00088 272630010399 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 272630010400 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 272630010401 catalytic residue [active] 272630010402 putative FPP diphosphate binding site; other site 272630010403 putative FPP binding hydrophobic cleft; other site 272630010404 dimer interface [polypeptide binding]; other site 272630010405 putative IPP diphosphate binding site; other site 272630010406 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272630010407 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 272630010408 FeS/SAM binding site; other site 272630010409 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 272630010410 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 272630010411 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 272630010412 glycerol kinase; Provisional; Region: glpK; PRK00047 272630010413 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 272630010414 N- and C-terminal domain interface [polypeptide binding]; other site 272630010415 putative active site [active] 272630010416 putative MgATP binding site [chemical binding]; other site 272630010417 catalytic site [active] 272630010418 metal binding site [ion binding]; metal-binding site 272630010419 putative homotetramer interface [polypeptide binding]; other site 272630010420 putative glycerol binding site [chemical binding]; other site 272630010421 homodimer interface [polypeptide binding]; other site 272630010422 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630010423 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 272630010424 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 272630010425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630010426 dimer interface [polypeptide binding]; other site 272630010427 putative CheW interface [polypeptide binding]; other site 272630010428 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 272630010429 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 272630010430 active site 272630010431 catalytic site [active] 272630010432 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 272630010433 homotrimer interaction site [polypeptide binding]; other site 272630010434 putative active site [active] 272630010435 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272630010436 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 bacteriocins; Region: Peptidase_C39C; cd02419 272630010437 putative active site [active] 272630010438 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630010439 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 272630010440 Walker A/P-loop; other site 272630010441 ATP binding site [chemical binding]; other site 272630010442 Q-loop/lid; other site 272630010443 ABC transporter signature motif; other site 272630010444 Walker B; other site 272630010445 D-loop; other site 272630010446 H-loop/switch region; other site 272630010447 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272630010448 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630010449 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630010450 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272630010451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630010452 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 272630010453 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 272630010454 inhibitor-cofactor binding pocket; inhibition site 272630010455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630010456 catalytic residue [active] 272630010457 ornithine carbamoyltransferase; Provisional; Region: PRK00779 272630010458 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272630010459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010460 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 272630010461 putative hydrophobic ligand binding site [chemical binding]; other site 272630010462 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_8; cd07246 272630010463 putative dimer interface [polypeptide binding]; other site 272630010464 short chain dehydrogenase; Provisional; Region: PRK06523 272630010465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010466 NAD(P) binding site [chemical binding]; other site 272630010467 active site 272630010468 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 272630010469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630010470 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272630010471 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 272630010472 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 272630010473 GAF domain; Region: GAF; cl15785 272630010474 Phytochrome region; Region: PHY; pfam00360 272630010475 Histidine kinase; Region: HisKA_2; cl06527 272630010476 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 272630010477 ATP binding site [chemical binding]; other site 272630010478 Mg2+ binding site [ion binding]; other site 272630010479 G-X-G motif; other site 272630010480 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 272630010481 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272630010482 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 272630010483 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 272630010484 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 272630010485 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272630010486 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 272630010487 Walker A motif; other site 272630010488 ATP binding site [chemical binding]; other site 272630010489 Walker B motif; other site 272630010490 arginine finger; other site 272630010491 Helix-turn-helix domains; Region: HTH; cl00088 272630010492 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272630010493 flagellar assembly protein H; Validated; Region: fliH; PRK06032 272630010494 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272630010495 FliG C-terminal domain; Region: FliG_C; pfam01706 272630010496 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272630010497 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272630010498 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272630010499 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 272630010500 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272630010501 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 272630010502 FlgD Ig-like domain; Region: FlgD_ig; cl15790 272630010503 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 272630010504 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 272630010505 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 272630010506 Ligand Binding Site [chemical binding]; other site 272630010507 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272630010508 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 272630010509 S-adenosylmethionine binding site [chemical binding]; other site 272630010510 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272630010511 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272630010512 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 272630010513 ATP binding site [chemical binding]; other site 272630010514 Mg2+ binding site [ion binding]; other site 272630010515 G-X-G motif; other site 272630010516 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; cl00391 272630010517 active site clefts [active] 272630010518 zinc binding site [ion binding]; other site 272630010519 dimer interface [polypeptide binding]; other site 272630010520 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272630010521 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 272630010522 putative substrate translocation pore; other site 272630010523 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 272630010524 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630010525 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630010526 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630010527 Helix-turn-helix domains; Region: HTH; cl00088 272630010528 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 272630010529 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 272630010530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630010531 active site 272630010532 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 272630010533 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 272630010534 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 272630010535 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 272630010536 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 272630010537 dimer interface [polypeptide binding]; other site 272630010538 phosphorylation site [posttranslational modification] 272630010539 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 272630010540 ATP binding site [chemical binding]; other site 272630010541 Mg2+ binding site [ion binding]; other site 272630010542 G-X-G motif; other site 272630010543 Response regulator receiver domain; Region: Response_reg; pfam00072 272630010544 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 272630010545 active site 272630010546 phosphorylation site [posttranslational modification] 272630010547 intermolecular recognition site; other site 272630010548 dimerization interface [polypeptide binding]; other site 272630010549 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 272630010550 tetramer interface [polypeptide binding]; other site 272630010551 dimer interface [polypeptide binding]; other site 272630010552 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 272630010553 tetramer interface [polypeptide binding]; other site 272630010554 dimer interface [polypeptide binding]; other site 272630010555 circadian clock protein KaiC; Reviewed; Region: PRK09302 272630010556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010557 Walker A motif; other site 272630010558 ATP binding site [chemical binding]; other site 272630010559 Walker B motif; other site 272630010560 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010561 Walker A motif; other site 272630010562 ATP binding site [chemical binding]; other site 272630010563 Walker B motif; other site 272630010564 Response regulator receiver domain; Region: Response_reg; pfam00072 272630010565 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 272630010566 active site 272630010567 phosphorylation site [posttranslational modification] 272630010568 intermolecular recognition site; other site 272630010569 dimerization interface [polypeptide binding]; other site 272630010570 sensor protein PhoQ; Provisional; Region: PRK10815 272630010571 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 272630010572 ATP binding site [chemical binding]; other site 272630010573 Mg2+ binding site [ion binding]; other site 272630010574 G-X-G motif; other site 272630010575 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630010576 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 272630010577 active site 272630010578 phosphorylation site [posttranslational modification] 272630010579 intermolecular recognition site; other site 272630010580 dimerization interface [polypeptide binding]; other site 272630010581 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 272630010582 DNA binding site [nucleotide binding] 272630010583 Predicted membrane protein [Function unknown]; Region: COG3212 272630010584 Staphylococcal nuclease homologues; Region: SNc; smart00318 272630010585 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272630010586 Catalytic site; other site 272630010587 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 272630010588 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272630010589 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630010590 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630010591 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 272630010592 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 272630010593 N-terminal plug; other site 272630010594 ligand-binding site [chemical binding]; other site 272630010595 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 272630010596 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 272630010597 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 272630010598 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 272630010599 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 272630010600 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 272630010601 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 272630010602 active site 272630010603 substrate binding site [chemical binding]; other site 272630010604 metal binding site [ion binding]; metal-binding site 272630010605 Right handed beta helix region; Region: Beta_helix; pfam13229 272630010606 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630010607 Right handed beta helix region; Region: Beta_helix; pfam13229 272630010608 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630010609 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 272630010610 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 272630010611 Bacterial sugar transferase; Region: Bac_transf; cl00939 272630010612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010613 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630010614 NAD(P) binding site [chemical binding]; other site 272630010615 active site 272630010616 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 272630010617 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 272630010618 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630010619 NAD binding site [chemical binding]; other site 272630010620 putative substrate binding site 2 [chemical binding]; other site 272630010621 putative substrate binding site 1 [chemical binding]; other site 272630010622 active site 272630010623 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 272630010624 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272630010625 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 272630010626 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272630010627 Substrate binding site; other site 272630010628 Cupin domain; Region: Cupin_2; cl09118 272630010629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630010630 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 272630010631 active site 272630010632 phosphorylation site [posttranslational modification] 272630010633 intermolecular recognition site; other site 272630010634 dimerization interface [polypeptide binding]; other site 272630010635 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630010636 DNA binding residues [nucleotide binding] 272630010637 dimerization interface [polypeptide binding]; other site 272630010638 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 272630010639 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630010640 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630010641 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630010642 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272630010643 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 272630010644 putative hydrophobic ligand binding site [chemical binding]; other site 272630010645 protein interface [polypeptide binding]; other site 272630010646 gate; other site 272630010647 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 272630010648 metal ion-dependent adhesion site (MIDAS); other site 272630010649 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 272630010650 metal ion-dependent adhesion site (MIDAS); other site 272630010651 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 272630010652 MoxR-like ATPases [General function prediction only]; Region: COG0714 272630010653 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 272630010654 Walker A motif; other site 272630010655 ATP binding site [chemical binding]; other site 272630010656 Walker B motif; other site 272630010657 arginine finger; other site 272630010658 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 272630010659 Cytochrome c; Region: Cytochrom_C; cl11414 272630010660 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 272630010661 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 272630010662 substrate binding pocket [chemical binding]; other site 272630010663 membrane-bound complex binding site; other site 272630010664 hinge residues; other site 272630010665 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272630010666 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 272630010667 Trp docking motif [polypeptide binding]; other site 272630010668 dimer interface [polypeptide binding]; other site 272630010669 active site 272630010670 small subunit binding site [polypeptide binding]; other site 272630010671 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630010672 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 272630010673 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630010674 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 272630010675 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 272630010676 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272630010677 Substrate binding site; other site 272630010678 Mg++ binding site; other site 272630010679 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 272630010680 putative trimer interface [polypeptide binding]; other site 272630010681 putative CoA binding site [chemical binding]; other site 272630010682 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272630010683 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 272630010684 glutaminase active site [active] 272630010685 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 272630010686 dimer interface [polypeptide binding]; other site 272630010687 active site 272630010688 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 272630010689 dimer interface [polypeptide binding]; other site 272630010690 active site 272630010691 Domain of unknown function (DUF336); Region: DUF336; cl01249 272630010692 Protein of unknown function (DUF502); Region: DUF502; cl01107 272630010693 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272630010694 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 272630010695 generic binding surface II; other site 272630010696 ssDNA binding site; other site 272630010697 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 272630010698 ATP binding site [chemical binding]; other site 272630010699 putative Mg++ binding site [ion binding]; other site 272630010700 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 272630010701 nucleotide binding region [chemical binding]; other site 272630010702 ATP-binding site [chemical binding]; other site 272630010703 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 272630010704 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272630010705 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272630010706 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 272630010707 ATP binding site [chemical binding]; other site 272630010708 putative Mg++ binding site [ion binding]; other site 272630010709 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 272630010710 nucleotide binding region [chemical binding]; other site 272630010711 ATP-binding site [chemical binding]; other site 272630010712 TRCF domain; Region: TRCF; cl04088 272630010713 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 protein; Region: CSP_CDS; cd04458 272630010714 DNA-binding site [nucleotide binding]; DNA binding site 272630010715 RNA-binding motif; other site 272630010716 AMP-binding domain protein; Validated; Region: PRK08315 272630010717 AMP-binding enzyme; Region: AMP-binding; cl15778 272630010718 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 272630010719 dimer interface [polypeptide binding]; other site 272630010720 phosphorylation site [posttranslational modification] 272630010721 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 272630010722 ATP binding site [chemical binding]; other site 272630010723 Mg2+ binding site [ion binding]; other site 272630010724 G-X-G motif; other site 272630010725 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 272630010726 active site 272630010727 phosphorylation site [posttranslational modification] 272630010728 intermolecular recognition site; other site 272630010729 dimerization interface [polypeptide binding]; other site 272630010730 acyl-CoA synthetase; Validated; Region: PRK08162 272630010731 AMP-binding enzyme; Region: AMP-binding; cl15778 272630010732 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630010733 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 272630010734 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272630010735 Ligand binding site; other site 272630010736 Putative Catalytic site; other site 272630010737 DXD motif; other site 272630010738 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 272630010739 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 272630010740 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 272630010741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010742 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630010743 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630010744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010745 NAD(P) binding site [chemical binding]; other site 272630010746 active site 272630010747 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 272630010748 EamA-like transporter family; Region: EamA; cl01037 272630010749 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 272630010750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630010751 Histidine kinase; Region: HisKA_2; cl06527 272630010752 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 272630010753 ATP binding site [chemical binding]; other site 272630010754 Mg2+ binding site [ion binding]; other site 272630010755 G-X-G motif; other site 272630010756 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 272630010757 active site 272630010758 oxyanion hole [active] 272630010759 catalytic triad [active] 272630010760 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 272630010761 heme-binding site [chemical binding]; other site 272630010762 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630010763 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272630010764 active site 272630010765 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 272630010766 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272630010767 active site 272630010768 HIGH motif; other site 272630010769 KMSKS motif; other site 272630010770 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272630010771 tRNA binding surface [nucleotide binding]; other site 272630010772 anticodon binding site; other site 272630010773 DNA polymerase III subunit delta'; Validated; Region: PRK07471 272630010774 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010776 thymidylate kinase; Validated; Region: tmk; PRK00698 272630010777 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 272630010778 TMP-binding site; other site 272630010779 ATP-binding site [chemical binding]; other site 272630010780 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 272630010781 dimer interface [polypeptide binding]; other site 272630010782 conserved gate region; other site 272630010783 putative PBP binding loops; other site 272630010784 ABC-ATPase subunit interface; other site 272630010785 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 272630010786 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272630010787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010788 Walker A/P-loop; other site 272630010789 ATP binding site [chemical binding]; other site 272630010790 Q-loop/lid; other site 272630010791 ABC transporter signature motif; other site 272630010792 Walker B; other site 272630010793 D-loop; other site 272630010794 H-loop/switch region; other site 272630010795 TOBE domain; Region: TOBE_2; cl01440 272630010796 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 272630010797 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 272630010798 ligand binding site [chemical binding]; other site 272630010799 flexible hinge region; other site 272630010800 Helix-turn-helix domains; Region: HTH; cl00088 272630010801 Predicted membrane protein [Function unknown]; Region: COG5373 272630010802 Predicted membrane protein [Function unknown]; Region: COG5373 272630010803 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 272630010804 D-galactonate transporter; Region: 2A0114; TIGR00893 272630010805 putative substrate translocation pore; other site 272630010806 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 272630010807 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272630010808 homodimer interface [polypeptide binding]; other site 272630010809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630010810 catalytic residue [active] 272630010811 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272630010812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630010813 DNA-binding site [nucleotide binding]; DNA binding site 272630010814 FCD domain; Region: FCD; cl11656 272630010815 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 272630010816 short chain dehydrogenase; Provisional; Region: PRK06701 272630010817 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272630010818 NAD binding site [chemical binding]; other site 272630010819 metal binding site [ion binding]; metal-binding site 272630010820 active site 272630010821 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272630010822 FAD binding domain; Region: FAD_binding_4; pfam01565 272630010823 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272630010824 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 272630010825 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 272630010826 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272630010827 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272630010828 tetramerization interface [polypeptide binding]; other site 272630010829 NAD(P) binding site [chemical binding]; other site 272630010830 catalytic residues [active] 272630010831 Hint domain; Region: Hint_2; pfam13403 272630010832 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 272630010833 Chain length determinant protein; Region: Wzz; cl15801 272630010834 O-Antigen ligase; Region: Wzy_C; cl04850 272630010835 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272630010836 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272630010837 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 272630010838 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630010839 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272630010840 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630010841 Response regulator receiver domain; Region: Response_reg; pfam00072 272630010842 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 272630010843 active site 272630010844 phosphorylation site [posttranslational modification] 272630010845 intermolecular recognition site; other site 272630010846 dimerization interface [polypeptide binding]; other site 272630010847 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630010848 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 272630010849 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272630010850 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630010851 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630010852 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630010853 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 272630010854 PAS domain; Region: PAS_9; pfam13426 272630010855 putative active site [active] 272630010856 heme pocket [chemical binding]; other site 272630010857 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 272630010858 putative active site [active] 272630010859 PAS fold; Region: PAS_3; pfam08447 272630010860 heme pocket [chemical binding]; other site 272630010861 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 272630010862 dimer interface [polypeptide binding]; other site 272630010863 phosphorylation site [posttranslational modification] 272630010864 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 272630010865 ATP binding site [chemical binding]; other site 272630010866 Mg2+ binding site [ion binding]; other site 272630010867 G-X-G motif; other site 272630010868 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 272630010869 active site 272630010870 phosphorylation site [posttranslational modification] 272630010871 intermolecular recognition site; other site 272630010872 dimerization interface [polypeptide binding]; other site 272630010873 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 272630010874 active site 272630010875 phosphorylation site [posttranslational modification] 272630010876 intermolecular recognition site; other site 272630010877 dimerization interface [polypeptide binding]; other site 272630010878 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 272630010879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630010880 DNA-binding site [nucleotide binding]; DNA binding site 272630010881 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 272630010882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630010883 homodimer interface [polypeptide binding]; other site 272630010884 catalytic residue [active] 272630010885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630010886 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 272630010887 active site 272630010888 phosphorylation site [posttranslational modification] 272630010889 intermolecular recognition site; other site 272630010890 dimerization interface [polypeptide binding]; other site 272630010891 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630010892 DNA binding residues [nucleotide binding] 272630010893 dimerization interface [polypeptide binding]; other site 272630010894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272630010895 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630010896 Protein of unknown function (DUF983); Region: DUF983; cl02211 272630010897 L-lactate permease; Region: Lactate_perm; cl00701 272630010898 glycolate transporter; Provisional; Region: PRK09695 272630010899 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272630010900 dimanganese center [ion binding]; other site 272630010901 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 272630010902 substrate binding pocket [chemical binding]; other site 272630010903 substrate-Mg2+ binding site; other site 272630010904 aspartate-rich region 2; other site 272630010905 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 272630010906 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272630010907 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272630010908 Protein export membrane protein; Region: SecD_SecF; cl14618 272630010909 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 272630010910 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272630010911 Protein export membrane protein; Region: SecD_SecF; cl14618 272630010912 Preprotein translocase subunit; Region: YajC; cl00806 272630010913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630010914 Peptidase family M23; Region: Peptidase_M23; pfam01551 272630010915 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 272630010916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010917 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 272630010918 S-adenosylmethionine binding site [chemical binding]; other site 272630010919 Survival protein SurE; Region: SurE; cl00448 272630010920 seryl-tRNA synthetase; Provisional; Region: PRK05431 272630010921 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272630010922 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 bound...; Region: SerRS_core; cd00770 272630010923 dimer interface [polypeptide binding]; other site 272630010924 active site 272630010925 motif 1; other site 272630010926 motif 2; other site 272630010927 motif 3; other site 272630010928 PqqA family; Region: PqqA; cl15372 272630010929 PqqA family; Region: PqqA; cl15372 272630010930 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630010931 Helix-turn-helix domains; Region: HTH; cl00088 272630010932 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 272630010933 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 272630010934 substrate binding site [chemical binding]; other site 272630010935 oxyanion hole (OAH) forming residues; other site 272630010936 trimer interface [polypeptide binding]; other site 272630010937 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; cl15762 272630010938 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_aspartate_rich; cd04823 272630010939 dimer interface [polypeptide binding]; other site 272630010940 allosteric magnesium binding site [ion binding]; other site 272630010941 active site 272630010942 aspartate-rich active site metal binding site; other site 272630010943 Schiff base residues; other site 272630010944 RDD family; Region: RDD; cl00746 272630010945 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 272630010946 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 272630010947 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630010948 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 272630010949 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630010950 maltose O-acetyltransferase; Provisional; Region: PRK10092 272630010951 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 272630010952 active site 272630010953 substrate binding site [chemical binding]; other site 272630010954 trimer interface [polypeptide binding]; other site 272630010955 CoA binding site [chemical binding]; other site 272630010956 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 272630010957 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 272630010958 Fe-S cluster binding site [ion binding]; other site 272630010959 active site 272630010960 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 272630010961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630010962 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 272630010963 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 272630010964 putative active site pocket [active] 272630010965 cleavage site 272630010966 Predicted permeases [General function prediction only]; Region: RarD; COG2962 272630010967 cystathionine beta-lyase; Provisional; Region: PRK05967 272630010968 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 272630010969 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630010970 catalytic residue [active] 272630010971 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272630010972 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630010973 NAD binding site [chemical binding]; other site 272630010974 catalytic Zn binding site [ion binding]; other site 272630010975 structural Zn binding site [ion binding]; other site 272630010976 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630010977 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 272630010978 PAS fold; Region: PAS_4; pfam08448 272630010979 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 272630010980 PAS fold; Region: PAS_4; pfam08448 272630010981 PAS domain S-box; Region: sensory_box; TIGR00229 272630010982 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 272630010983 putative active site [active] 272630010984 heme pocket [chemical binding]; other site 272630010985 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 272630010986 PAS fold; Region: PAS_3; pfam08447 272630010987 putative active site [active] 272630010988 heme pocket [chemical binding]; other site 272630010989 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272630010990 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 272630010991 putative active site [active] 272630010992 heme pocket [chemical binding]; other site 272630010993 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 272630010994 dimer interface [polypeptide binding]; other site 272630010995 phosphorylation site [posttranslational modification] 272630010996 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 272630010997 ATP binding site [chemical binding]; other site 272630010998 Mg2+ binding site [ion binding]; other site 272630010999 G-X-G motif; other site 272630011000 Response regulator receiver domain; Region: Response_reg; pfam00072 272630011001 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 272630011002 active site 272630011003 phosphorylation site [posttranslational modification] 272630011004 intermolecular recognition site; other site 272630011005 dimerization interface [polypeptide binding]; other site 272630011006 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272630011007 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 272630011008 Probable Catalytic site; other site 272630011009 metal-binding site 272630011010 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272630011011 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630011012 Probable Catalytic site; other site 272630011013 metal-binding site 272630011014 Cupin domain; Region: Cupin_2; cl09118 272630011015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011016 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 272630011017 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 272630011018 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 272630011019 putative dimer interface [polypeptide binding]; other site 272630011020 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272630011021 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 272630011022 ATP binding site [chemical binding]; other site 272630011023 Mg2+ binding site [ion binding]; other site 272630011024 G-X-G motif; other site 272630011025 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 272630011026 ATP binding site [chemical binding]; other site 272630011027 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 272630011028 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272630011029 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630011030 active site 272630011031 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272630011032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630011033 Walker A/P-loop; other site 272630011034 ATP binding site [chemical binding]; other site 272630011035 Q-loop/lid; other site 272630011036 ABC transporter signature motif; other site 272630011037 Walker B; other site 272630011038 D-loop; other site 272630011039 H-loop/switch region; other site 272630011040 ABC transporter; Region: ABC_tran_2; pfam12848 272630011041 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 272630011042 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630011043 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; cl00161 272630011044 OsmC-like protein; Region: OsmC; cl00767 272630011045 Domain of unknown function (DUF336); Region: DUF336; cl01249 272630011046 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272630011047 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272630011048 peptide binding site [polypeptide binding]; other site 272630011049 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 272630011050 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 272630011051 dimer interface [polypeptide binding]; other site 272630011052 conserved gate region; other site 272630011053 putative PBP binding loops; other site 272630011054 ABC-ATPase subunit interface; other site 272630011055 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 272630011056 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 272630011057 ABC-ATPase subunit interface; other site 272630011058 benzoate transport; Region: 2A0115; TIGR00895 272630011059 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 272630011060 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 272630011061 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 272630011062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630011063 Helix-turn-helix domains; Region: HTH; cl00088 272630011064 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 272630011065 dimerization interface [polypeptide binding]; other site 272630011066 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630011067 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 272630011068 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 272630011069 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 272630011070 DsbD alpha interface [polypeptide binding]; other site 272630011071 catalytic residues [active] 272630011072 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272630011073 MutS domain I; Region: MutS_I; pfam01624 272630011074 MutS domain II; Region: MutS_II; pfam05188 272630011075 MutS family domain IV; Region: MutS_IV; pfam05190 272630011076 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 272630011077 Walker A/P-loop; other site 272630011078 ATP binding site [chemical binding]; other site 272630011079 Q-loop/lid; other site 272630011080 ABC transporter signature motif; other site 272630011081 Walker B; other site 272630011082 D-loop; other site 272630011083 H-loop/switch region; other site 272630011084 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 272630011085 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 272630011086 nucleotide binding region [chemical binding]; other site 272630011087 ATP-binding site [chemical binding]; other site 272630011088 Helicase associated domain (HA2); Region: HA2; cl04503 272630011089 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 272630011090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272630011091 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 272630011092 active site 272630011093 dimer interface [polypeptide binding]; other site 272630011094 metal binding site [ion binding]; metal-binding site 272630011095 glutathione binding site [chemical binding]; other site 272630011096 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272630011097 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 272630011098 active site 272630011099 DNA binding site [nucleotide binding] 272630011100 Int/Topo IB signature motif; other site 272630011101 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630011102 catalytic core [active] 272630011103 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 272630011104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 272630011105 MOSC domain; Region: MOSC; pfam03473 272630011106 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 272630011107 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272630011108 NAD binding site [chemical binding]; other site 272630011109 homotetramer interface [polypeptide binding]; other site 272630011110 homodimer interface [polypeptide binding]; other site 272630011111 substrate binding site [chemical binding]; other site 272630011112 active site 272630011113 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 272630011114 HSP70 interaction site [polypeptide binding]; other site 272630011115 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272630011116 substrate binding site [polypeptide binding]; other site 272630011117 dimer interface [polypeptide binding]; other site 272630011118 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 272630011119 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630011120 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 272630011121 Response regulator receiver domain; Region: Response_reg; pfam00072 272630011122 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 272630011123 active site 272630011124 phosphorylation site [posttranslational modification] 272630011125 intermolecular recognition site; other site 272630011126 dimerization interface [polypeptide binding]; other site 272630011127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630011128 classical (c) SDRs; Region: SDR_c; cd05233 272630011129 NAD(P) binding site [chemical binding]; other site 272630011130 active site 272630011131 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 272630011132 nudix motif; other site 272630011133 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 272630011134 dihydroorotase; Validated; Region: PRK09060 272630011135 Urease alpha-subunit, N-terminal domain; Region: Urease_alpha; pfam00449 272630011136 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 272630011137 active site 272630011138 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 272630011139 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 272630011140 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272630011141 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 272630011142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272630011143 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 272630011144 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 272630011145 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272630011146 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 272630011147 TPP-binding site; other site 272630011148 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 272630011149 PYR/PP interface [polypeptide binding]; other site 272630011150 dimer interface [polypeptide binding]; other site 272630011151 TPP binding site [chemical binding]; other site 272630011152 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630011153 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 272630011154 E-class dimer interface [polypeptide binding]; other site 272630011155 P-class dimer interface [polypeptide binding]; other site 272630011156 active site 272630011157 Cu2+ binding site [ion binding]; other site 272630011158 Zn2+ binding site [ion binding]; other site 272630011159 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 272630011160 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 272630011161 RNA binding surface [nucleotide binding]; other site 272630011162 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; cl15754 272630011163 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272630011164 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; cl15754 272630011165 Protein of unknown function (DUF563); Region: DUF563; cl15705 272630011166 DHHW protein; Region: DHHW; pfam14286 272630011167 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 272630011168 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630011169 Protein of unknown function, DUF482; Region: DUF482; pfam04339 272630011170 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272630011171 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 272630011172 metal binding site [ion binding]; metal-binding site 272630011173 putative dimer interface [polypeptide binding]; other site 272630011174 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 272630011175 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 272630011176 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 272630011177 DNA binding site [nucleotide binding] 272630011178 active site 272630011179 Cation efflux family; Region: Cation_efflux; cl00316 272630011180 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 272630011181 HIT family signature motif; other site 272630011182 catalytic residue [active] 272630011183 PilZ domain; Region: PilZ; cl01260 272630011184 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 272630011185 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 272630011186 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272630011187 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 272630011188 active site 272630011189 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 272630011190 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 272630011191 dimer interface [polypeptide binding]; other site 272630011192 active site 272630011193 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 272630011194 dimer interface [polypeptide binding]; other site 272630011195 active site 272630011196 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 272630011197 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 272630011198 putative active site [active] 272630011199 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272630011200 putative catalytic site [active] 272630011201 putative metal binding site [ion binding]; other site 272630011202 putative phosphate binding site [ion binding]; other site 272630011203 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272630011204 active site 272630011205 homotetramer interface [polypeptide binding]; other site 272630011206 homodimer interface [polypeptide binding]; other site 272630011207 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272630011208 putative active site [active] 272630011209 catalytic site [active] 272630011210 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 272630011211 putative active site [active] 272630011212 catalytic site [active] 272630011213 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272630011214 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 272630011215 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 272630011216 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 272630011217 Subunit I/III interface [polypeptide binding]; other site 272630011218 Subunit III/IV interface [polypeptide binding]; other site 272630011219 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 272630011220 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 272630011221 D-pathway; other site 272630011222 Putative ubiquinol binding site [chemical binding]; other site 272630011223 Low-spin heme (heme b) binding site [chemical binding]; other site 272630011224 Putative water exit pathway; other site 272630011225 Binuclear center (heme o3/CuB) [ion binding]; other site 272630011226 K-pathway; other site 272630011227 Putative proton exit pathway; other site 272630011228 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 272630011229 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630011230 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 272630011231 metabolite-proton symporter; Region: 2A0106; TIGR00883 272630011232 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 272630011233 putative substrate translocation pore; other site 272630011234 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272630011235 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630011236 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630011237 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630011238 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630011239 Helix-turn-helix domains; Region: HTH; cl00088 272630011240 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630011241 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 272630011242 active site 272630011243 phosphorylation site [posttranslational modification] 272630011244 intermolecular recognition site; other site 272630011245 dimerization interface [polypeptide binding]; other site 272630011246 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630011247 DNA binding residues [nucleotide binding] 272630011248 dimerization interface [polypeptide binding]; other site 272630011249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630011250 Histidine kinase; Region: HisKA_3; pfam07730 272630011251 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 272630011252 ATP binding site [chemical binding]; other site 272630011253 Mg2+ binding site [ion binding]; other site 272630011254 G-X-G motif; other site 272630011255 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630011256 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630011257 DNA binding residues [nucleotide binding] 272630011258 dimerization interface [polypeptide binding]; other site 272630011259 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630011260 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 272630011261 active site 272630011262 phosphorylation site [posttranslational modification] 272630011263 intermolecular recognition site; other site 272630011264 dimerization interface [polypeptide binding]; other site 272630011265 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630011266 DNA binding residues [nucleotide binding] 272630011267 dimerization interface [polypeptide binding]; other site 272630011268 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 272630011269 active site 272630011270 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 272630011271 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 272630011272 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 272630011273 active site 272630011274 DNA binding site [nucleotide binding] 272630011275 Int/Topo IB signature motif; other site 272630011276 ParB-like nuclease domain; Region: ParBc; cl02129 272630011277 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 272630011278 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 272630011279 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 272630011280 Catalytic site [active] 272630011281 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272630011282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630011284 Helix-turn-helix domains; Region: HTH; cl00088 272630011285 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 272630011286 putative dimerization interface [polypeptide binding]; other site 272630011287 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272630011288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011289 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272630011290 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272630011291 substrate binding site [chemical binding]; other site 272630011292 ligand binding site [chemical binding]; other site 272630011293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630011294 Helix-turn-helix domains; Region: HTH; cl00088 272630011295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630011296 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630011297 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 272630011298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272630011299 Helix-turn-helix domains; Region: HTH; cl00088 272630011300 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 272630011301 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 272630011302 potential catalytic triad [active] 272630011303 conserved cys residue [active] 272630011304 Amidase; Region: Amidase; cl11426 272630011305 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 272630011306 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 272630011307 ligand binding site [chemical binding]; other site 272630011308 flexible hinge region; other site 272630011309 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272630011310 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630011311 Cupin domain; Region: Cupin_2; cl09118 272630011312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630011313 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272630011314 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 272630011315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011316 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 272630011317 conserved cys residue [active] 272630011318 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 272630011319 NMT1-like family; Region: NMT1_2; cl15260 272630011320 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272630011321 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 272630011322 dimer interface [polypeptide binding]; other site 272630011323 conserved gate region; other site 272630011324 putative PBP binding loops; other site 272630011325 ABC-ATPase subunit interface; other site 272630011326 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272630011327 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630011328 Walker A/P-loop; other site 272630011329 ATP binding site [chemical binding]; other site 272630011330 Q-loop/lid; other site 272630011331 ABC transporter signature motif; other site 272630011332 Walker B; other site 272630011333 D-loop; other site 272630011334 H-loop/switch region; other site 272630011335 tellurite resistance protein terB; Region: terB; cd07176 272630011336 putative metal binding site [ion binding]; other site 272630011337 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 272630011338 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 272630011339 G1 box; other site 272630011340 putative GEF interaction site [polypeptide binding]; other site 272630011341 GTP/Mg2+ binding site [chemical binding]; other site 272630011342 Switch I region; other site 272630011343 G2 box; other site 272630011344 G3 box; other site 272630011345 Switch II region; other site 272630011346 G4 box; other site 272630011347 G5 box; other site 272630011348 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 272630011349 elongation factor Tu; Reviewed; Region: PRK00049 272630011350 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 272630011351 G1 box; other site 272630011352 GEF interaction site [polypeptide binding]; other site 272630011353 GTP/Mg2+ binding site [chemical binding]; other site 272630011354 Switch I region; other site 272630011355 G2 box; other site 272630011356 G3 box; other site 272630011357 Switch II region; other site 272630011358 G4 box; other site 272630011359 G5 box; other site 272630011360 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 272630011361 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 272630011362 Antibiotic Binding Site [chemical binding]; other site 272630011363 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 272630011364 RNA binding surface [nucleotide binding]; other site 272630011365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630011366 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 272630011367 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 272630011368 nucleotide binding region [chemical binding]; other site 272630011369 ATP-binding site [chemical binding]; other site 272630011370 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 272630011371 Heme NO binding; Region: HNOB; cl15268 272630011372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630011373 metal binding site [ion binding]; metal-binding site 272630011374 active site 272630011375 I-site; other site 272630011376 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 272630011377 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272630011378 glucokinase, proteobacterial type; Region: glk; TIGR00749 272630011379 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630011380 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 272630011381 Domain of unknown function (DUF427); Region: DUF427; cl00998 272630011382 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 272630011383 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630011384 BCCT family transporter; Region: BCCT; cl00569 272630011385 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 272630011386 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 272630011387 putative dimer interface [polypeptide binding]; other site 272630011388 [2Fe-2S] cluster binding site [ion binding]; other site 272630011389 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 272630011390 putative dimer interface [polypeptide binding]; other site 272630011391 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 272630011392 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272630011393 SLBB domain; Region: SLBB; pfam10531 272630011394 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 272630011395 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 272630011396 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; cl00159 272630011397 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 272630011398 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 272630011399 [4Fe-4S] binding site [ion binding]; other site 272630011400 molybdopterin cofactor binding site; other site 272630011401 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 272630011402 molybdopterin cofactor binding site; other site 272630011403 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 272630011404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630011405 Helix-turn-helix domains; Region: HTH; cl00088 272630011406 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272630011407 dimerization interface [polypeptide binding]; other site 272630011408 GTPase CgtA; Reviewed; Region: obgE; PRK12299 272630011409 GTP1/OBG; Region: GTP1_OBG; pfam01018 272630011410 Obg GTPase; Region: Obg; cd01898 272630011411 G1 box; other site 272630011412 GTP/Mg2+ binding site [chemical binding]; other site 272630011413 Switch I region; other site 272630011414 G2 box; other site 272630011415 G3 box; other site 272630011416 Switch II region; other site 272630011417 G4 box; other site 272630011418 G5 box; other site 272630011419 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272630011420 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630011421 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 272630011422 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 272630011423 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 272630011424 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630011425 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 272630011426 putative substrate translocation pore; other site 272630011427 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272630011428 nucleophile elbow; other site 272630011429 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 272630011430 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 272630011431 putative lipid kinase; Reviewed; Region: PRK13057 272630011432 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272630011433 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630011434 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630011435 active site 272630011436 metal binding site [ion binding]; metal-binding site 272630011437 Sodium:solute symporter family; Region: SSF; cl00456 272630011438 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 272630011439 PAS domain S-box; Region: sensory_box; TIGR00229 272630011440 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 272630011441 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 272630011442 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 272630011443 dimer interface [polypeptide binding]; other site 272630011444 phosphorylation site [posttranslational modification] 272630011445 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 272630011446 ATP binding site [chemical binding]; other site 272630011447 Mg2+ binding site [ion binding]; other site 272630011448 G-X-G motif; other site 272630011449 Response regulator receiver domain; Region: Response_reg; pfam00072 272630011450 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 272630011451 active site 272630011452 phosphorylation site [posttranslational modification] 272630011453 intermolecular recognition site; other site 272630011454 dimerization interface [polypeptide binding]; other site 272630011455 tellurium resistance terB-like protein; Region: terB_like; cl11965 272630011456 metal binding site [ion binding]; metal-binding site 272630011457 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 272630011458 Substrate binding site; other site 272630011459 metal-binding site 272630011460 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 272630011461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630011462 Phosphotransferase enzyme family; Region: APH; pfam01636 272630011463 PAS fold; Region: PAS_7; pfam12860 272630011464 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272630011465 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 272630011466 dimer interface [polypeptide binding]; other site 272630011467 phosphorylation site [posttranslational modification] 272630011468 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 272630011469 ATP binding site [chemical binding]; other site 272630011470 Mg2+ binding site [ion binding]; other site 272630011471 G-X-G motif; other site 272630011472 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 272630011473 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 272630011474 oligomerization interface [polypeptide binding]; other site 272630011475 active site 272630011476 NAD+ binding site [chemical binding]; other site 272630011477 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 272630011478 AMP-binding enzyme; Region: AMP-binding; cl15778 272630011479 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630011480 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 272630011481 putative FMN binding site [chemical binding]; other site 272630011482 enoyl-CoA hydratase; Validated; Region: PRK08139 272630011483 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 272630011484 substrate binding site [chemical binding]; other site 272630011485 oxyanion hole (OAH) forming residues; other site 272630011486 trimer interface [polypeptide binding]; other site 272630011487 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 272630011488 putative catalytic site [active] 272630011489 putative metal binding site [ion binding]; other site 272630011490 putative phosphate binding site [ion binding]; other site 272630011491 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 272630011492 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 272630011493 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 272630011494 putative active site [active] 272630011495 catalytic site [active] 272630011496 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272630011497 putative active site [active] 272630011498 catalytic site [active] 272630011499 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 272630011500 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 272630011501 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630011502 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 272630011503 Family description; Region: UvrD_C_2; cl15862 272630011504 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 272630011505 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630011506 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 272630011507 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 272630011508 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 272630011509 catalytic residues [active] 272630011510 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272630011511 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272630011512 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272630011513 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630011514 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 272630011515 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 272630011516 substrate binding site [chemical binding]; other site 272630011517 active site 272630011518 catalytic residues [active] 272630011519 heterodimer interface [polypeptide binding]; other site 272630011520 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 272630011521 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 272630011522 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 272630011523 putative NADH binding site [chemical binding]; other site 272630011524 putative active site [active] 272630011525 nudix motif; other site 272630011526 putative metal binding site [ion binding]; other site 272630011527 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 272630011528 nucleotide binding site/active site [active] 272630011529 HIT family signature motif; other site 272630011530 catalytic residue [active] 272630011531 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; cl09944 272630011532 active site 272630011533 phosphorylation site [posttranslational modification] 272630011534 intermolecular recognition site; other site 272630011535 dimerization interface [polypeptide binding]; other site 272630011536 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630011537 Zn2+ binding site [ion binding]; other site 272630011538 Mg2+ binding site [ion binding]; other site 272630011539 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 272630011540 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272630011541 ATP binding site [chemical binding]; other site 272630011542 Mg++ binding site [ion binding]; other site 272630011543 motif III; other site 272630011544 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 272630011545 nucleotide binding region [chemical binding]; other site 272630011546 ATP-binding site [chemical binding]; other site 272630011547 DbpA RNA binding domain; Region: DbpA; pfam03880 272630011548 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272630011549 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 272630011550 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 272630011551 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; cl00075 272630011552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630011553 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 272630011554 active site 272630011555 phosphorylation site [posttranslational modification] 272630011556 intermolecular recognition site; other site 272630011557 dimerization interface [polypeptide binding]; other site 272630011558 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630011559 DNA binding residues [nucleotide binding] 272630011560 dimerization interface [polypeptide binding]; other site 272630011561 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 272630011562 amino acid transporter; Region: 2A0306; TIGR00909 272630011563 Spore germination protein; Region: Spore_permease; cl15802 272630011564 Spore germination protein; Region: Spore_permease; cl15802 272630011565 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630011566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 272630011567 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630011568 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 272630011569 Walker A/P-loop; other site 272630011570 ATP binding site [chemical binding]; other site 272630011571 Q-loop/lid; other site 272630011572 ABC transporter signature motif; other site 272630011573 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 272630011574 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 272630011575 putative active site [active] 272630011576 putative dimer interface [polypeptide binding]; other site 272630011577 RNA polymerase sigma factor; Provisional; Region: PRK12547 272630011578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630011579 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 272630011580 DNA binding residues [nucleotide binding] 272630011581 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630011582 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630011583 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; cl00159 272630011584 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; cl00086 272630011585 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 272630011586 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 272630011587 non-specific DNA binding site [nucleotide binding]; other site 272630011588 salt bridge; other site 272630011589 sequence-specific DNA binding site [nucleotide binding]; other site 272630011590 Cupin domain; Region: Cupin_2; cl09118 272630011591 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 272630011592 dimer interface [polypeptide binding]; other site 272630011593 substrate binding site [chemical binding]; other site 272630011594 ATP binding site [chemical binding]; other site 272630011595 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 272630011596 active site 272630011597 thiamine phosphate binding site [chemical binding]; other site 272630011598 pyrophosphate binding site [ion binding]; other site 272630011599 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 272630011600 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630011601 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630011602 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 272630011603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011604 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 272630011605 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272630011606 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 272630011607 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 272630011608 S-adenosylmethionine binding site [chemical binding]; other site 272630011609 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272630011610 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272630011611 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272630011612 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 272630011613 active site 272630011614 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 272630011615 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 272630011616 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272630011617 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272630011618 active site 272630011619 Phosphotransferase enzyme family; Region: APH; pfam01636 272630011620 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630011621 substrate binding site [chemical binding]; other site 272630011622 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 272630011623 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630011624 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 272630011625 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630011626 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630011627 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 272630011628 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 272630011629 putative C-terminal domain interface [polypeptide binding]; other site 272630011630 putative GSH binding site (G-site) [chemical binding]; other site 272630011631 putative dimer interface [polypeptide binding]; other site 272630011632 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 272630011633 putative N-terminal domain interface [polypeptide binding]; other site 272630011634 putative dimer interface [polypeptide binding]; other site 272630011635 putative substrate binding pocket (H-site) [chemical binding]; other site 272630011636 transcriptional regulator; Provisional; Region: PRK10632 272630011637 Helix-turn-helix domains; Region: HTH; cl00088 272630011638 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 272630011639 putative effector binding pocket; other site 272630011640 putative dimerization interface [polypeptide binding]; other site 272630011641 sulfite reductase; Provisional; Region: PRK06214 272630011642 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 272630011643 FAD binding pocket [chemical binding]; other site 272630011644 FAD binding motif [chemical binding]; other site 272630011645 catalytic residues [active] 272630011646 NAD binding pocket [chemical binding]; other site 272630011647 phosphate binding motif [ion binding]; other site 272630011648 beta-alpha-beta structure motif; other site 272630011649 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 272630011650 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272630011651 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272630011652 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 272630011653 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272630011654 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 272630011655 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 272630011656 Walker A/P-loop; other site 272630011657 ATP binding site [chemical binding]; other site 272630011658 Q-loop/lid; other site 272630011659 ABC transporter signature motif; other site 272630011660 Walker B; other site 272630011661 D-loop; other site 272630011662 H-loop/switch region; other site 272630011663 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272630011664 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 272630011665 dimer interface [polypeptide binding]; other site 272630011666 conserved gate region; other site 272630011667 putative PBP binding loops; other site 272630011668 ABC-ATPase subunit interface; other site 272630011669 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 272630011670 NMT1-like family; Region: NMT1_2; cl15260 272630011671 NMT1-like family; Region: NMT1_2; cl15260 272630011672 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 272630011673 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; cl09944 272630011674 active site 272630011675 phosphorylation site [posttranslational modification] 272630011676 intermolecular recognition site; other site 272630011677 dimerization interface [polypeptide binding]; other site 272630011678 ANTAR domain; Region: ANTAR; cl04297 272630011679 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 272630011680 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 272630011681 transketolase; Reviewed; Region: PRK05899 272630011682 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 272630011683 TPP-binding site [chemical binding]; other site 272630011684 dimer interface [polypeptide binding]; other site 272630011685 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 272630011686 PYR/PP interface [polypeptide binding]; other site 272630011687 dimer interface [polypeptide binding]; other site 272630011688 TPP binding site [chemical binding]; other site 272630011689 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272630011690 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 272630011691 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 272630011692 putative active site [active] 272630011693 catalytic residue [active] 272630011694 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 272630011695 active site 272630011696 dimer interface [polypeptide binding]; other site 272630011697 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272630011698 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272630011699 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 272630011700 PAS domain; Region: PAS_9; pfam13426 272630011701 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 272630011702 putative active site [active] 272630011703 heme pocket [chemical binding]; other site 272630011704 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272630011705 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630011706 dimer interface [polypeptide binding]; other site 272630011707 putative CheW interface [polypeptide binding]; other site 272630011708 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630011709 short chain dehydrogenase; Provisional; Region: PRK06181 272630011710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011711 NAD(P) binding site [chemical binding]; other site 272630011712 active site 272630011713 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 272630011714 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630011715 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630011716 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630011717 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 272630011718 active site residue [active] 272630011719 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 272630011720 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630011721 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272630011722 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630011723 DNA binding residues [nucleotide binding] 272630011724 dimerization interface [polypeptide binding]; other site 272630011725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630011726 Helix-turn-helix domains; Region: HTH; cl00088 272630011727 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 272630011728 putative substrate binding pocket [chemical binding]; other site 272630011729 putative dimerization interface [polypeptide binding]; other site 272630011730 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630011731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630011732 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 272630011733 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 272630011734 Trp docking motif [polypeptide binding]; other site 272630011735 active site 272630011736 GAF domain; Region: GAF; cl15785 272630011737 GAF domain; Region: GAF_2; pfam13185 272630011738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630011739 Histidine kinase; Region: HisKA_2; cl06527 272630011740 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 272630011741 ATP binding site [chemical binding]; other site 272630011742 Mg2+ binding site [ion binding]; other site 272630011743 G-X-G motif; other site 272630011744 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630011745 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630011746 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630011747 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630011748 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630011749 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 272630011750 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; cl00159 272630011751 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630011752 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 272630011753 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 272630011754 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 272630011755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011756 NAD(P) binding site [chemical binding]; other site 272630011757 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 272630011758 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 272630011759 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272630011760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011761 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272630011762 Protein of unknown function, DUF606; Region: DUF606; cl01273 272630011763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630011764 Helix-turn-helix domains; Region: HTH; cl00088 272630011765 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 272630011766 dimerization interface [polypeptide binding]; other site 272630011767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011768 Enoylreductase; Region: PKS_ER; smart00829 272630011769 NAD(P) binding site [chemical binding]; other site 272630011770 GAF domain; Region: GAF_2; pfam13185 272630011771 GAF domain; Region: GAF; cl15785 272630011772 PAS domain S-box; Region: sensory_box; TIGR00229 272630011773 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 272630011774 putative active site [active] 272630011775 heme pocket [chemical binding]; other site 272630011776 GAF domain; Region: GAF; cl15785 272630011777 PAS fold; Region: PAS_3; pfam08447 272630011778 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630011779 hypothetical protein; Provisional; Region: PRK13559 272630011780 Histidine kinase; Region: HisKA_2; cl06527 272630011781 response regulator; Provisional; Region: PRK13435 272630011782 Bacterial SH3 domain; Region: SH3_3; cl02551 272630011783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011784 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 272630011785 NAD(P) binding site [chemical binding]; other site 272630011786 active site 272630011787 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 272630011788 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 272630011789 dimer interface [polypeptide binding]; other site 272630011790 active site 272630011791 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 272630011792 active site 272630011793 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 272630011794 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630011795 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630011796 I-site; other site 272630011797 active site 272630011798 metal binding site [ion binding]; metal-binding site 272630011799 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272630011800 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630011801 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 272630011802 Helix-turn-helix domains; Region: HTH; cl00088 272630011803 Cupin domain; Region: Cupin_2; cl09118 272630011804 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 272630011805 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 272630011806 putative dimer interface [polypeptide binding]; other site 272630011807 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272630011808 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630011809 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630011810 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 272630011811 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 272630011812 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 272630011813 active site 272630011814 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630011815 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 272630011816 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272630011817 LamB/YcsF family; Region: LamB_YcsF; cl00664 272630011818 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 272630011819 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; cl09108 272630011820 active site 272630011821 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 272630011822 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272630011823 Domain of unknown function DUF59; Region: DUF59; cl00941 272630011824 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 272630011825 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 272630011826 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272630011827 GTP binding site; other site 272630011828 DNA gyrase subunit A; Validated; Region: PRK05560 272630011829 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 in DNA...; Region: TOP4c; cd00187 272630011830 CAP-like domain; other site 272630011831 active site 272630011832 primary dimer interface [polypeptide binding]; other site 272630011833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630011834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630011835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630011836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630011837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630011838 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 272630011839 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272630011840 active site 272630011841 (T/H)XGH motif; other site 272630011842 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 272630011843 active site 272630011844 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 272630011845 active site 272630011846 Response regulator receiver domain; Region: Response_reg; pfam00072 272630011847 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 272630011848 active site 272630011849 phosphorylation site [posttranslational modification] 272630011850 intermolecular recognition site; other site 272630011851 dimerization interface [polypeptide binding]; other site 272630011852 Cell division inhibitor SulA; Region: SulA; cl01880 272630011853 DNA Polymerase Y-family; Region: PolY_like; cd03468 272630011854 active site 272630011855 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 272630011856 DNA binding site [nucleotide binding] 272630011857 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 272630011858 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272630011859 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 272630011860 generic binding surface I; other site 272630011861 generic binding surface II; other site 272630011862 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 272630011863 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 272630011864 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 272630011865 active site 272630011866 nucleophile elbow; other site 272630011867 Patatin phospholipase; Region: DUF3734; pfam12536 272630011868 Ion channel; Region: Ion_trans_2; cl11596 272630011869 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 272630011870 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 272630011871 putative dimer interface [polypeptide binding]; other site 272630011872 [2Fe-2S] cluster binding site [ion binding]; other site 272630011873 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 272630011874 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 272630011875 SLBB domain; Region: SLBB; pfam10531 272630011876 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 272630011877 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 272630011878 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 272630011879 catalytic loop [active] 272630011880 iron binding site [ion binding]; other site 272630011881 4Fe-4S binding domain; Region: Fer4; cl02805 272630011882 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 272630011883 [4Fe-4S] binding site [ion binding]; other site 272630011884 molybdopterin cofactor binding site; other site 272630011885 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_CT_Formate-Dh_H; cd02790 272630011886 molybdopterin cofactor binding site; other site 272630011887 MatE; Region: MatE; cl10513 272630011888 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630011889 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 272630011890 putative active site [active] 272630011891 putative metal binding site [ion binding]; other site 272630011892 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 272630011893 Right handed beta helix region; Region: Beta_helix; pfam13229 272630011894 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 272630011895 AAA domain; Region: AAA_31; pfam13614 272630011896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272630011897 classical (c) SDRs; Region: SDR_c; cd05233 272630011898 NAD(P) binding site [chemical binding]; other site 272630011899 active site 272630011900 AMP-binding enzyme; Region: AMP-binding; cl15778 272630011901 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272630011902 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630011903 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630011904 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 272630011905 dimer interface [polypeptide binding]; other site 272630011906 active site 272630011907 motif 2; other site 272630011908 motif 3; other site 272630011909 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 272630011910 active site 272630011911 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630011912 Flavin Reductases; Region: FlaRed; cl00801 272630011913 thiamine pyrophosphate protein; Validated; Region: PRK08199 272630011914 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272630011915 PYR/PP interface [polypeptide binding]; other site 272630011916 dimer interface [polypeptide binding]; other site 272630011917 TPP binding site [chemical binding]; other site 272630011918 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272630011919 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 272630011920 TPP-binding site [chemical binding]; other site 272630011921 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 272630011922 homodimer interface [polypeptide binding]; other site 272630011923 substrate-cofactor binding pocket; other site 272630011924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630011925 catalytic residue [active] 272630011926 Cupin domain; Region: Cupin_2; cl09118 272630011927 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 272630011928 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 272630011929 homodimer interface [polypeptide binding]; other site 272630011930 substrate-cofactor binding pocket; other site 272630011931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630011932 catalytic residue [active] 272630011933 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272630011934 conserved cys residue [active] 272630011935 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 272630011936 AMP-binding enzyme; Region: AMP-binding; cl15778 272630011937 MatE; Region: MatE; cl10513 272630011938 Right handed beta helix region; Region: Beta_helix; pfam13229 272630011939 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 272630011940 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 272630011941 hypothetical protein; Provisional; Region: PRK01254 272630011942 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 272630011943 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 272630011944 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 272630011945 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 272630011946 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 272630011947 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 272630011948 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272630011949 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272630011950 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 272630011951 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272630011952 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272630011953 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272630011954 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 272630011955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011956 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272630011957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011958 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272630011959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011960 NAD(P) binding site [chemical binding]; other site 272630011961 active site 272630011962 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 272630011963 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 272630011964 NADP binding site [chemical binding]; other site 272630011965 active site 272630011966 putative substrate binding site [chemical binding]; other site 272630011967 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 272630011968 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 272630011969 peptide synthase; Validated; Region: PRK05691 272630011970 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 272630011971 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 272630011972 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630011973 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 272630011974 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 272630011975 Condensation domain; Region: Condensation; pfam00668 272630011976 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 272630011977 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 272630011978 AMP-binding enzyme; Region: AMP-binding; cl15778 272630011979 acyl-CoA synthetase; Validated; Region: PRK08308 272630011980 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630011981 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 272630011982 catalytic core [active] 272630011983 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272630011984 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 272630011985 active site 272630011986 catalytic tetrad [active] 272630011987 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272630011988 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 272630011989 Walker A motif; other site 272630011990 ATP binding site [chemical binding]; other site 272630011991 Walker B motif; other site 272630011992 arginine finger; other site 272630011993 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272630011994 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 272630011995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011996 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 272630011997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630011998 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272630011999 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272630012000 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272630012001 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 272630012002 Mg++ binding site [ion binding]; other site 272630012003 putative catalytic motif [active] 272630012004 putative substrate binding site [chemical binding]; other site 272630012005 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 272630012006 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272630012007 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272630012008 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272630012009 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272630012010 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272630012011 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272630012012 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272630012013 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272630012014 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630012015 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 272630012016 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 272630012017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012018 Ligase N family; Region: LIGANc; smart00532 272630012019 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 272630012020 nucleotide binding pocket [chemical binding]; other site 272630012021 K-X-D-G motif; other site 272630012022 catalytic site [active] 272630012023 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272630012024 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272630012025 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 272630012026 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 272630012027 Dimer interface [polypeptide binding]; other site 272630012028 BRCT sequence motif; other site 272630012029 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 272630012030 putative active site [active] 272630012031 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 272630012032 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272630012033 substrate binding site [chemical binding]; other site 272630012034 ATP binding site [chemical binding]; other site 272630012035 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272630012036 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 272630012037 CoA-transferase family III; Region: CoA_transf_3; pfam02515 272630012038 enoyl-CoA hydratase; Provisional; Region: PRK06144 272630012039 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 272630012040 substrate binding site [chemical binding]; other site 272630012041 oxyanion hole (OAH) forming residues; other site 272630012042 trimer interface [polypeptide binding]; other site 272630012043 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272630012044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630012045 DNA-binding site [nucleotide binding]; DNA binding site 272630012046 FCD domain; Region: FCD; cl11656 272630012047 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 272630012048 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 272630012049 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630012050 catalytic residue [active] 272630012051 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012052 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 272630012053 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 272630012054 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 272630012055 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 272630012056 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 272630012057 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 272630012058 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 272630012059 Predicted membrane protein [Function unknown]; Region: COG3766 272630012060 CTP synthetase; Validated; Region: pyrG; PRK05380 272630012061 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 272630012062 Catalytic site [active] 272630012063 active site 272630012064 UTP binding site [chemical binding]; other site 272630012065 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272630012066 active site 272630012067 putative oxyanion hole; other site 272630012068 catalytic triad [active] 272630012069 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 272630012070 catalytic triad [active] 272630012071 conserved cis-peptide bond; other site 272630012072 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 272630012073 substrate binding site [chemical binding]; other site 272630012074 dimer interface [polypeptide binding]; other site 272630012075 catalytic triad [active] 272630012076 periplasmic folding chaperone; Provisional; Region: PRK10788 272630012077 SurA N-terminal domain; Region: SurA_N_3; cl07813 272630012078 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272630012079 anthranilate synthase component I; Provisional; Region: PRK13573 272630012080 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272630012081 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272630012082 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 272630012083 dimerization interface [polypeptide binding]; other site 272630012084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630012085 dimer interface [polypeptide binding]; other site 272630012086 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 272630012087 putative CheW interface [polypeptide binding]; other site 272630012088 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272630012089 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272630012090 glutamine binding [chemical binding]; other site 272630012091 catalytic triad [active] 272630012092 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272630012093 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272630012094 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272630012095 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 272630012096 active site 272630012097 ribulose/triose binding site [chemical binding]; other site 272630012098 phosphate binding site [ion binding]; other site 272630012099 substrate (anthranilate) binding pocket [chemical binding]; other site 272630012100 product (indole) binding pocket [chemical binding]; other site 272630012101 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 272630012102 trimer interface [polypeptide binding]; other site 272630012103 dimer interface [polypeptide binding]; other site 272630012104 putative active site [active] 272630012105 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272630012106 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 272630012107 dimer interface [polypeptide binding]; other site 272630012108 putative functional site; other site 272630012109 putative MPT binding site; other site 272630012110 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 272630012111 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 272630012112 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 272630012113 active site 272630012114 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 272630012115 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 272630012116 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 272630012117 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 272630012118 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 272630012119 dimer interface [polypeptide binding]; other site 272630012120 Citrate synthase; Region: Citrate_synt; pfam00285 272630012121 active site 272630012122 citrylCoA binding site [chemical binding]; other site 272630012123 NADH binding [chemical binding]; other site 272630012124 cationic pore residues; other site 272630012125 oxalacetate/citrate binding site [chemical binding]; other site 272630012126 coenzyme A binding site [chemical binding]; other site 272630012127 catalytic triad [active] 272630012128 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272630012129 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272630012130 active site 272630012131 HIGH motif; other site 272630012132 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272630012133 active site 272630012134 KMSKS motif; other site 272630012135 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 272630012136 Competence protein; Region: Competence; cl00471 272630012137 LexA repressor; Validated; Region: PRK00215 272630012138 Helix-turn-helix domains; Region: HTH; cl00088 272630012139 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 272630012140 Catalytic site [active] 272630012141 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 272630012142 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 272630012143 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 272630012144 putative substrate translocation pore; other site 272630012145 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 272630012146 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272630012147 tartrate dehydrogenase; Provisional; Region: PRK08194 272630012148 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272630012149 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 272630012150 active site 272630012151 catalytic tetrad [active] 272630012152 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 272630012153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630012154 dimer interface [polypeptide binding]; other site 272630012155 putative CheW interface [polypeptide binding]; other site 272630012156 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272630012157 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630012158 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 272630012159 protein binding site [polypeptide binding]; other site 272630012160 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 272630012161 protein binding site [polypeptide binding]; other site 272630012162 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 272630012163 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272630012164 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630012165 active site 272630012166 HIGH motif; other site 272630012167 nucleotide binding site [chemical binding]; other site 272630012168 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272630012169 active site 272630012170 KMSKS motif; other site 272630012171 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272630012172 tRNA binding surface [nucleotide binding]; other site 272630012173 anticodon binding site; other site 272630012174 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272630012175 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 272630012176 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 272630012177 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 272630012178 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 272630012179 S-adenosylmethionine binding site [chemical binding]; other site 272630012180 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 272630012181 putative substrate binding site [chemical binding]; other site 272630012182 putative ATP binding site [chemical binding]; other site 272630012183 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 272630012184 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 272630012185 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 272630012186 dimer interface [polypeptide binding]; other site 272630012187 conserved gate region; other site 272630012188 putative PBP binding loops; other site 272630012189 ABC-ATPase subunit interface; other site 272630012190 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 272630012191 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 272630012192 dimer interface [polypeptide binding]; other site 272630012193 conserved gate region; other site 272630012194 putative PBP binding loops; other site 272630012195 ABC-ATPase subunit interface; other site 272630012196 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 272630012197 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 272630012198 Walker A/P-loop; other site 272630012199 ATP binding site [chemical binding]; other site 272630012200 Q-loop/lid; other site 272630012201 ABC transporter signature motif; other site 272630012202 Walker B; other site 272630012203 D-loop; other site 272630012204 H-loop/switch region; other site 272630012205 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272630012206 PhoU domain; Region: PhoU; pfam01895 272630012207 PhoU domain; Region: PhoU; pfam01895 272630012208 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 272630012209 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 272630012210 active site 272630012211 phosphorylation site [posttranslational modification] 272630012212 intermolecular recognition site; other site 272630012213 dimerization interface [polypeptide binding]; other site 272630012214 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 272630012215 DNA binding site [nucleotide binding] 272630012216 GcrA cell cycle regulator; Region: GcrA; cl11564 272630012217 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 272630012218 DNA polymerase IV; Provisional; Region: PRK02794 272630012219 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272630012220 active site 272630012221 DNA binding site [nucleotide binding] 272630012222 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 272630012223 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 272630012224 cobyric acid synthase; Provisional; Region: PRK00784 272630012225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012226 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272630012227 catalytic triad [active] 272630012228 CobD/Cbib protein; Region: CobD_Cbib; cl00561 272630012229 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 272630012230 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 272630012231 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630012232 catalytic residue [active] 272630012233 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272630012234 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 272630012235 CsbD-like; Region: CsbD; cl15799 272630012236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012237 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 272630012238 NAD(P) binding site [chemical binding]; other site 272630012239 active site 272630012240 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272630012241 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 272630012242 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 272630012243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 272630012244 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 272630012245 Transglycosylase SLT domain; Region: SLT_2; pfam13406 272630012246 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 272630012247 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630012248 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272630012249 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272630012250 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 272630012251 RNA binding surface [nucleotide binding]; other site 272630012252 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 272630012253 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 272630012254 FMN binding site [chemical binding]; other site 272630012255 substrate binding site [chemical binding]; other site 272630012256 putative catalytic residue [active] 272630012257 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 272630012258 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272630012259 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272630012260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630012261 metal binding site [ion binding]; metal-binding site 272630012262 active site 272630012263 I-site; other site 272630012264 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630012265 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 272630012266 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 272630012267 Walker A/P-loop; other site 272630012268 ATP binding site [chemical binding]; other site 272630012269 Q-loop/lid; other site 272630012270 ABC transporter signature motif; other site 272630012271 Walker B; other site 272630012272 D-loop; other site 272630012273 H-loop/switch region; other site 272630012274 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272630012275 putative peptidoglycan binding site; other site 272630012276 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272630012277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012278 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272630012279 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272630012280 active site 272630012281 HIGH motif; other site 272630012282 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272630012283 KMSKS motif; other site 272630012284 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272630012285 tRNA binding surface [nucleotide binding]; other site 272630012286 anticodon binding site; other site 272630012287 CreA protein; Region: CreA; pfam05981 272630012288 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 272630012289 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272630012290 ligand binding site [chemical binding]; other site 272630012291 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 272630012292 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 272630012293 putative substrate translocation pore; other site 272630012294 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 272630012295 dimer interface [polypeptide binding]; other site 272630012296 Methyltransferase domain; Region: Methyltransf_31; pfam13847 272630012297 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 272630012298 S-adenosylmethionine binding site [chemical binding]; other site 272630012299 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 272630012300 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272630012301 active site 272630012302 HIGH motif; other site 272630012303 nucleotide binding site [chemical binding]; other site 272630012304 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272630012305 active site 272630012306 KMSKS motif; other site 272630012307 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 272630012308 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630012309 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630012310 Fusaric acid resistance protein family; Region: FUSC; pfam04632 272630012311 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 272630012312 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 272630012313 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 272630012314 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 272630012315 C-terminal domain interface [polypeptide binding]; other site 272630012316 GSH binding site (G-site) [chemical binding]; other site 272630012317 dimer interface [polypeptide binding]; other site 272630012318 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 272630012319 N-terminal domain interface [polypeptide binding]; other site 272630012320 putative dimer interface [polypeptide binding]; other site 272630012321 active site 272630012322 translocation protein TolB; Provisional; Region: tolB; PRK05137 272630012323 TolB amino-terminal domain; Region: TolB_N; cl00639 272630012324 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272630012325 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272630012326 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272630012327 TolA protein; Region: tolA_full; TIGR02794 272630012328 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272630012329 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272630012330 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272630012331 dimer interface [polypeptide binding]; other site 272630012332 putative CheW interface [polypeptide binding]; other site 272630012333 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 272630012334 active site 272630012335 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012336 potential frameshift: common BLAST hit: gi|218533108|ref|YP_002423924.1| metallophosphoesterase 272630012337 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630012338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630012339 active site 272630012340 metal binding site [ion binding]; metal-binding site 272630012341 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272630012342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012343 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 272630012344 Walker A motif; other site 272630012345 ATP binding site [chemical binding]; other site 272630012346 Walker B motif; other site 272630012347 arginine finger; other site 272630012348 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272630012349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272630012350 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272630012351 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630012352 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 272630012353 Ferritin-like domain; Region: Ferritin; pfam00210 272630012354 dimerization interface [polypeptide binding]; other site 272630012355 DPS ferroxidase diiron center [ion binding]; other site 272630012356 ion pore; other site 272630012357 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 272630012358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012359 CoA-ligase; Region: Ligase_CoA; cl02894 272630012360 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272630012361 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272630012362 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630012363 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 272630012364 intersubunit interface [polypeptide binding]; other site 272630012365 active site 272630012366 Zn2+ binding site [ion binding]; other site 272630012367 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630012368 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630012369 Restriction endonuclease; Region: Mrr_cat; cl00516 272630012370 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272630012371 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630012372 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272630012373 Transglycosylase; Region: Transgly; cl07896 272630012374 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272630012375 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630012376 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 272630012377 cyclase homology domain; Region: CHD; cd07302 272630012378 nucleotidyl binding site; other site 272630012379 metal binding site [ion binding]; metal-binding site 272630012380 dimer interface [polypeptide binding]; other site 272630012381 MAPEG family; Region: MAPEG; cl09190 272630012382 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272630012383 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 272630012384 P-loop; other site 272630012385 Magnesium ion binding site [ion binding]; other site 272630012386 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 272630012387 Magnesium ion binding site [ion binding]; other site 272630012388 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272630012389 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 272630012390 ring oligomerisation interface [polypeptide binding]; other site 272630012391 ATP/Mg binding site [chemical binding]; other site 272630012392 stacking interactions; other site 272630012393 hinge regions; other site 272630012394 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 272630012395 oligomerisation interface [polypeptide binding]; other site 272630012396 mobile loop; other site 272630012397 roof hairpin; other site 272630012398 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272630012399 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272630012400 MarC family integral membrane protein; Region: MarC; cl00919 272630012401 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272630012402 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 272630012403 FAD binding domain; Region: FAD_binding_4; pfam01565 272630012404 Phosphate transporter family; Region: PHO4; cl00396 272630012405 Phosphate transporter family; Region: PHO4; cl00396 272630012406 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 272630012407 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 272630012408 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 272630012409 Substrate binding site; other site 272630012410 Cupin domain; Region: Cupin_2; cl09118 272630012411 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 272630012412 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 272630012413 active site 272630012414 substrate binding site [chemical binding]; other site 272630012415 coenzyme B12 binding site [chemical binding]; other site 272630012416 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272630012417 B12 binding site [chemical binding]; other site 272630012418 cobalt ligand [ion binding]; other site 272630012419 Protein of unknown function (DUF817); Region: DUF817; cl01520 272630012420 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272630012421 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 272630012422 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 272630012423 protein binding site [polypeptide binding]; other site 272630012424 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 272630012425 HSP70 interaction site [polypeptide binding]; other site 272630012426 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272630012427 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630012428 Sporulation related domain; Region: SPOR; cl10051 272630012429 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 272630012430 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 272630012431 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 272630012432 Walker A motif; other site 272630012433 ATP binding site [chemical binding]; other site 272630012434 Walker B motif; other site 272630012435 arginine finger; other site 272630012436 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 272630012437 Walker A motif; other site 272630012438 ATP binding site [chemical binding]; other site 272630012439 Walker B motif; other site 272630012440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630012441 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630012442 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272630012443 substrate-cofactor binding pocket; other site 272630012444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630012445 catalytic residue [active] 272630012446 Protein of unknown function (DUF3623); Region: DUF3623; cl11843 272630012447 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 272630012448 diiron binding motif [ion binding]; other site 272630012449 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 272630012450 Bacterial PH domain; Region: DUF304; cl01348 272630012451 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 272630012452 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 272630012453 subunit C interaction residues; other site 272630012454 subunit M interaction residues [polypeptide binding]; other site 272630012455 subunit L interaction residues [polypeptide binding]; other site 272630012456 putative proton transfer pathway, P1; other site 272630012457 putative proton transfer pathway, P2; other site 272630012458 PUCC protein; Region: PUCC; pfam03209 272630012459 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 272630012460 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 272630012461 S-adenosylmethionine binding site [chemical binding]; other site 272630012462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012463 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 272630012464 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 272630012465 P-loop; other site 272630012466 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 272630012467 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 272630012468 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272630012469 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 272630012470 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 272630012471 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 272630012472 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 272630012473 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 272630012474 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 272630012475 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 272630012476 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 272630012477 B12 binding site [chemical binding]; other site 272630012478 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 272630012479 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 272630012480 Helix-turn-helix domains; Region: HTH; cl00088 272630012481 UbiA prenyltransferase family; Region: UbiA; cl00337 272630012482 PUCC protein; Region: PUCC; pfam03209 272630012483 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 272630012484 TspO/MBR family; Region: TspO_MBR; cl01379 272630012485 Cytochrome c; Region: Cytochrom_C; cl11414 272630012486 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 272630012487 Cytochrome c; Region: Cytochrom_C; cl11414 272630012488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012489 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 272630012490 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 272630012491 putative active site [active] 272630012492 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 272630012493 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272630012494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012495 Walker A/P-loop; other site 272630012496 ATP binding site [chemical binding]; other site 272630012497 Q-loop/lid; other site 272630012498 ABC transporter signature motif; other site 272630012499 Walker B; other site 272630012500 D-loop; other site 272630012501 H-loop/switch region; other site 272630012502 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 272630012503 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272630012504 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 272630012505 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272630012506 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272630012507 ligand binding site [chemical binding]; other site 272630012508 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 272630012509 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 272630012510 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 272630012511 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272630012512 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 272630012513 active site 272630012514 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630012515 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630012516 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 272630012517 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 272630012518 active site 272630012519 substrate binding site [chemical binding]; other site 272630012520 metal binding site [ion binding]; metal-binding site 272630012521 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272630012522 FtsH Extracellular; Region: FtsH_ext; pfam06480 272630012523 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272630012524 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 272630012525 Walker A motif; other site 272630012526 ATP binding site [chemical binding]; other site 272630012527 Walker B motif; other site 272630012528 arginine finger; other site 272630012529 Peptidase family M41; Region: Peptidase_M41; pfam01434 272630012530 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 272630012531 Ligand Binding Site [chemical binding]; other site 272630012532 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 272630012533 Tetratricopeptide repeat; Region: TPR_6; pfam13174 272630012534 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272630012535 ligand binding site [chemical binding]; other site 272630012536 Response regulator receiver domain; Region: Response_reg; pfam00072 272630012537 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 272630012538 active site 272630012539 phosphorylation site [posttranslational modification] 272630012540 intermolecular recognition site; other site 272630012541 dimerization interface [polypeptide binding]; other site 272630012542 GSCFA family; Region: GSCFA; pfam08885 272630012543 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 272630012544 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272630012545 active site 272630012546 domain interfaces; other site 272630012547 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 272630012548 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 272630012549 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 272630012550 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 272630012551 putative active site [active] 272630012552 putative catalytic site [active] 272630012553 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 272630012554 TM-ABC transporter signature motif; other site 272630012555 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272630012556 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 272630012557 Walker A/P-loop; other site 272630012558 ATP binding site [chemical binding]; other site 272630012559 Q-loop/lid; other site 272630012560 ABC transporter signature motif; other site 272630012561 Walker B; other site 272630012562 D-loop; other site 272630012563 H-loop/switch region; other site 272630012564 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 272630012565 Walker A/P-loop; other site 272630012566 ATP binding site [chemical binding]; other site 272630012567 Q-loop/lid; other site 272630012568 ABC transporter signature motif; other site 272630012569 Walker B; other site 272630012570 D-loop; other site 272630012571 H-loop/switch region; other site 272630012572 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 272630012573 TM-ABC transporter signature motif; other site 272630012574 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272630012575 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 272630012576 putative ligand binding site [chemical binding]; other site 272630012577 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 272630012578 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272630012579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630012580 DNA-binding site [nucleotide binding]; DNA binding site 272630012581 FCD domain; Region: FCD; cl11656 272630012582 PAS fold; Region: PAS_3; pfam08447 272630012583 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272630012584 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630012585 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 272630012586 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 272630012587 putative substrate translocation pore; other site 272630012588 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 272630012589 dimerization interface [polypeptide binding]; other site 272630012590 metal binding site [ion binding]; metal-binding site 272630012591 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 272630012592 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 272630012593 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 272630012594 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272630012595 PYR/PP interface [polypeptide binding]; other site 272630012596 dimer interface [polypeptide binding]; other site 272630012597 TPP binding site [chemical binding]; other site 272630012598 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272630012599 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 272630012600 TPP-binding site [chemical binding]; other site 272630012601 dimer interface [polypeptide binding]; other site 272630012602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012603 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272630012604 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272630012605 putative valine binding site [chemical binding]; other site 272630012606 dimer interface [polypeptide binding]; other site 272630012607 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272630012608 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 272630012609 glutathionine S-transferase; Provisional; Region: PRK10542 272630012610 C-terminal domain interface [polypeptide binding]; other site 272630012611 GSH binding site (G-site) [chemical binding]; other site 272630012612 dimer interface [polypeptide binding]; other site 272630012613 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 272630012614 dimer interface [polypeptide binding]; other site 272630012615 substrate binding pocket (H-site) [chemical binding]; other site 272630012616 N-terminal domain interface [polypeptide binding]; other site 272630012617 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 272630012618 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 272630012619 active site 272630012620 dimer interface [polypeptide binding]; other site 272630012621 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 272630012622 Ligand Binding Site [chemical binding]; other site 272630012623 Molecular Tunnel; other site 272630012624 TIGR03442 family protein; Region: TIGR03442 272630012625 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 272630012626 putative active site [active] 272630012627 putative dimer interface [polypeptide binding]; other site 272630012628 RNA polymerase sigma factor; Provisional; Region: PRK12546 272630012629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630012630 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 272630012631 DNA binding residues [nucleotide binding] 272630012632 Response regulator receiver domain; Region: Response_reg; pfam00072 272630012633 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 272630012634 active site 272630012635 phosphorylation site [posttranslational modification] 272630012636 intermolecular recognition site; other site 272630012637 dimerization interface [polypeptide binding]; other site 272630012638 Histidine kinase; Region: HisKA_2; cl06527 272630012639 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 272630012640 ATP binding site [chemical binding]; other site 272630012641 Mg2+ binding site [ion binding]; other site 272630012642 G-X-G motif; other site 272630012643 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 272630012644 Response regulator receiver domain; Region: Response_reg; pfam00072 272630012645 active site 272630012646 phosphorylation site [posttranslational modification] 272630012647 intermolecular recognition site; other site 272630012648 dimerization interface [polypeptide binding]; other site 272630012649 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 272630012650 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 272630012651 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 272630012652 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 272630012653 putative active site [active] 272630012654 PAS fold; Region: PAS_3; pfam08447 272630012655 heme pocket [chemical binding]; other site 272630012656 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 272630012657 dimer interface [polypeptide binding]; other site 272630012658 phosphorylation site [posttranslational modification] 272630012659 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 272630012660 ATP binding site [chemical binding]; other site 272630012661 Mg2+ binding site [ion binding]; other site 272630012662 G-X-G motif; other site 272630012663 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 272630012664 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 272630012665 ligand binding site [chemical binding]; other site 272630012666 flexible hinge region; other site 272630012667 Helix-turn-helix domains; Region: HTH; cl00088 272630012668 GAF domain; Region: GAF_2; pfam13185 272630012669 GAF domain; Region: GAF; cl15785 272630012670 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 272630012671 PAS fold; Region: PAS_3; pfam08447 272630012672 putative active site [active] 272630012673 heme pocket [chemical binding]; other site 272630012674 response regulator FixJ; Provisional; Region: fixJ; PRK09390 272630012675 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 272630012676 active site 272630012677 phosphorylation site [posttranslational modification] 272630012678 intermolecular recognition site; other site 272630012679 dimerization interface [polypeptide binding]; other site 272630012680 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630012681 DNA binding residues [nucleotide binding] 272630012682 dimerization interface [polypeptide binding]; other site 272630012683 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 272630012684 putative active site [active] 272630012685 heme pocket [chemical binding]; other site 272630012686 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 272630012687 potential frameshift: common BLAST hit: gi|220922626|ref|YP_002497928.1| Protein of unknown function DUF1810 272630012688 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 272630012689 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 272630012690 ParA-like protein; Provisional; Region: PHA02518 272630012691 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 272630012692 P-loop; other site 272630012693 Magnesium ion binding site [ion binding]; other site 272630012694 TIR domain; Region: TIR_2; cl15770 272630012695 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 272630012696 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630012697 Protein of unknown function DUF262; Region: DUF262; cl14890 272630012698 Protein of unknown function DUF262; Region: DUF262; cl14890 272630012699 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272630012700 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630012701 catalytic residues [active] 272630012702 catalytic nucleophile [active] 272630012703 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630012704 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630012705 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630012706 Synaptic Site I dimer interface [polypeptide binding]; other site 272630012707 DNA binding site [nucleotide binding] 272630012708 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272630012709 DNA-binding interface [nucleotide binding]; DNA binding site 272630012710 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630012711 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272630012712 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630012713 catalytic residues [active] 272630012714 catalytic nucleophile [active] 272630012715 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630012716 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630012717 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630012718 Synaptic Site I dimer interface [polypeptide binding]; other site 272630012719 DNA binding site [nucleotide binding] 272630012720 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 272630012721 EF-hand domain pair; Region: EF_hand_5; pfam13499 272630012722 Ca2+ binding site [ion binding]; other site 272630012723 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 272630012724 non-specific DNA binding site [nucleotide binding]; other site 272630012725 salt bridge; other site 272630012726 sequence-specific DNA binding site [nucleotide binding]; other site 272630012727 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 272630012728 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 272630012729 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630012730 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630012731 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630012732 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 272630012733 IHF dimer interface [polypeptide binding]; other site 272630012734 IHF - DNA interface [nucleotide binding]; other site 272630012735 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 272630012736 dimerization interface [polypeptide binding]; other site 272630012737 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 272630012738 MobA/MobL family; Region: MobA_MobL; pfam03389 272630012739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012740 Family description; Region: UvrD_C_2; cl15862 272630012741 Conjugal transfer protein TraD; Region: TraD; cl05753 272630012742 Conjugal transfer protein TraD; Region: TraD; cl05753 272630012743 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272630012744 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 272630012745 P-loop; other site 272630012746 Magnesium ion binding site [ion binding]; other site 272630012747 Divergent AAA domain; Region: AAA_4; pfam04326 272630012748 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 272630012749 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630012750 heat shock protein GrpE; Provisional; Region: PRK14140 272630012751 multiple promoter invertase; Provisional; Region: mpi; PRK13413 272630012752 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 272630012753 catalytic residues [active] 272630012754 catalytic nucleophile [active] 272630012755 Presynaptic Site I dimer interface [polypeptide binding]; other site 272630012756 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 272630012757 Synaptic Flat tetramer interface [polypeptide binding]; other site 272630012758 Synaptic Site I dimer interface [polypeptide binding]; other site 272630012759 DNA binding site [nucleotide binding] 272630012760 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272630012761 DNA-binding interface [nucleotide binding]; DNA binding site 272630012762 Helix-turn-helix domains; Region: HTH; cl00088 272630012763 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272630012764 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 272630012765 Walker A motif; other site 272630012766 ATP binding site [chemical binding]; other site 272630012767 Walker B motif; other site 272630012768 arginine finger; other site 272630012769 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 272630012770 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630012771 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 272630012772 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 272630012773 active site 272630012774 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 272630012775 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 272630012776 putative NADP binding site [chemical binding]; other site 272630012777 active site 272630012778 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630012779 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 272630012780 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 272630012781 active site 272630012782 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 272630012783 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630012784 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272630012785 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630012786 ornithine-delta-aminotransferase; Region: PLN02624 272630012787 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 272630012788 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 272630012789 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272630012790 catalytic residue [active] 272630012791 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 272630012792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630012793 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 272630012794 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 272630012795 active site 272630012796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012797 ABC transporter signature motif; other site 272630012798 Walker B; other site 272630012799 D-loop; other site 272630012800 H-loop/switch region; other site 272630012801 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 272630012802 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272630012803 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272630012804 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; cl09108 272630012805 phosphate binding site [ion binding]; other site 272630012806 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272630012807 acyl-CoA synthetase; Validated; Region: PRK05850 272630012808 AMP-binding enzyme; Region: AMP-binding; cl15778 272630012809 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 272630012810 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 272630012811 nucleophilic elbow; other site 272630012812 catalytic triad; other site 272630012813 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 272630012814 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 272630012815 iron-sulfur cluster [ion binding]; other site 272630012816 [2Fe-2S] cluster binding site [ion binding]; other site 272630012817 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 272630012818 Cytochrome P450; Region: p450; pfam00067 272630012819 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272630012820 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272630012821 active site 272630012822 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 272630012823 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272630012824 TSCPD domain; Region: TSCPD; cl14834 272630012825 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 272630012826 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 272630012827 catalytic residue [active] 272630012828 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 272630012829 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 272630012830 active site 272630012831 phosphorylation site [posttranslational modification] 272630012832 intermolecular recognition site; other site 272630012833 dimerization interface [polypeptide binding]; other site 272630012834 Uncharacterized conserved protein [Function unknown]; Region: COG1432 272630012835 LabA_like proteins; Region: LabA; cd10911 272630012836 putative metal binding site [ion binding]; other site 272630012837 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; cl15754 272630012838 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 272630012839 cofactor binding site; other site 272630012840 DNA binding site [nucleotide binding] 272630012841 substrate interaction site [chemical binding]; other site 272630012842 StbA protein; Region: StbA; pfam06406 272630012843 PRTRC system protein D; Region: PRTRC_D; TIGR03739 272630012844 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 272630012845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630012846 Walker A motif; other site 272630012847 ATP binding site [chemical binding]; other site 272630012848 Walker B motif; other site 272630012849 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 272630012850 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 272630012851 active site 272630012852 Int/Topo IB signature motif; other site 272630012853 catalytic residues [active] 272630012854 DNA binding site [nucleotide binding] 272630012855 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272630012856 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630012857 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 272630012858 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 272630012859 oxyanion hole [active] 272630012860 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 272630012861 active site 272630012862 oxyanion hole [active] 272630012863 catalytic triad [active] 272630012864 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 272630012865 active site 272630012866 catalytic triad [active] 272630012867 oxyanion hole [active] 272630012868 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 272630012869 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 272630012870 active site 272630012871 phosphorylation site [posttranslational modification] 272630012872 intermolecular recognition site; other site 272630012873 dimerization interface [polypeptide binding]; other site 272630012874 ATP-dependent DNA helicase, RecQ family; Region: recQ_fam; TIGR00614 272630012875 RQC domain; Region: RQC; cl09632 272630012876 HRDC domain; Region: HRDC; cl02578 272630012877 YCII-related domain; Region: YCII; cl00999 272630012878 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630012879 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630012880 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630012881 Protein export membrane protein; Region: SecD_SecF; cl14618 272630012882 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012883 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 272630012884 dimerization interface [polypeptide binding]; other site 272630012885 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 272630012886 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630012887 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630012888 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 272630012889 motif II; other site 272630012890 Protein of unknown function, DUF; Region: DUF411; cl01142 272630012891 potential frameshift: common BLAST hit: gi|163851343|ref|YP_001639386.1| major facilitator transporter 272630012892 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 272630012893 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 272630012894 N-terminal plug; other site 272630012895 ligand-binding site [chemical binding]; other site 272630012896 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 272630012897 putative homodimer interface [polypeptide binding]; other site 272630012898 putative homotetramer interface [polypeptide binding]; other site 272630012899 putative allosteric switch controlling residues; other site 272630012900 putative metal binding site [ion binding]; other site 272630012901 putative homodimer-homodimer interface [polypeptide binding]; other site 272630012902 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; cl00207 272630012903 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630012904 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630012905 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 272630012906 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630012907 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 catalyze...; Region: LT_GEWL; cd00254 272630012908 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630012909 catalytic residue [active] 272630012910 Protein of unknown function, DUF; Region: DUF411; cl01142 272630012911 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630012912 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 272630012913 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630012914 FixH; Region: FixH; cl01254 272630012915 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 272630012916 RNA polymerase sigma factor; Provisional; Region: PRK12539 272630012917 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630012918 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630012919 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012920 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 272630012921 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630012922 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272630012923 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 272630012924 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 272630012925 Cytochrome c; Region: Cytochrom_C; cl11414 272630012926 Integrase core domain; Region: rve_3; cl15866 272630012927 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 272630012928 MOFRL family; Region: MOFRL; pfam05161 272630012929 pyruvate kinase; Provisional; Region: PRK06247 272630012930 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; cl09155 272630012931 domain interfaces; other site 272630012932 active site 272630012933 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630012934 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 272630012935 dimerization interface [polypeptide binding]; other site 272630012936 putative DNA binding site [nucleotide binding]; other site 272630012937 putative Zn2+ binding site [ion binding]; other site 272630012938 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272630012939 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272630012940 active site 272630012941 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 272630012942 ArsC family; Region: ArsC; pfam03960 272630012943 catalytic residues [active] 272630012944 potential frameshift: common BLAST hit: gi|218529068|ref|YP_002419884.1| arsenical-resistance protein 272630012945 Membrane transport protein; Region: Mem_trans; cl09117 272630012946 Membrane transport protein; Region: Mem_trans; cl09117 272630012947 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630012948 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630012949 Fic family protein [Function unknown]; Region: COG3177 272630012950 Fic/DOC family; Region: Fic; cl00960 272630012951 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630012952 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630012953 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630012954 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 272630012955 active site 272630012956 phosphorylation site [posttranslational modification] 272630012957 intermolecular recognition site; other site 272630012958 dimerization interface [polypeptide binding]; other site 272630012959 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 272630012960 DNA binding site [nucleotide binding] 272630012961 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 272630012962 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272630012963 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 272630012964 ATP binding site [chemical binding]; other site 272630012965 Mg2+ binding site [ion binding]; other site 272630012966 G-X-G motif; other site 272630012967 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630012968 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630012969 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 272630012970 Cation efflux family; Region: Cation_efflux; cl00316 272630012971 Pleiotropic Drug Resistance (PDR) Family protein; Region: 3a01205; TIGR00956 272630012972 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272630012973 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272630012974 Abi-like protein; Region: Abi_2; cl01988 272630012975 potential protein location (hypothetical protein associated with transposase of ISMdi3) that overlaps protein (hypothetical protein associated with transposase of ISMdi3) 272630012976 potential protein location (hypothetical protein associated with transposase of ISMdi3) that overlaps protein (hypothetical protein associated with transposase of ISMdi3) 272630012977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 272630012978 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272630012979 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 272630012980 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 272630012981 metal-binding site [ion binding] 272630012982 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630012983 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630012984 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 272630012985 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 272630012986 DNA binding residues [nucleotide binding] 272630012987 dimer interface [polypeptide binding]; other site 272630012988 putative metal binding site [ion binding]; other site 272630012989 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 272630012990 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272630012991 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272630012992 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630012993 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012994 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 272630012995 dimerization interface [polypeptide binding]; other site 272630012996 Domain of unknown function (DUF305); Region: DUF305; cl15795 272630012997 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630012998 Protein export membrane protein; Region: SecD_SecF; cl14618 272630012999 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 272630013000 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630013001 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 272630013002 metal-binding site [ion binding] 272630013003 LabA_like proteins; Region: LabA_like; cd06167 272630013004 Protein of unknown function, DUF; Region: DUF411; cl01142 272630013005 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630013006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013007 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272630013008 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 272630013009 ATP binding site [chemical binding]; other site 272630013010 putative Mg++ binding site [ion binding]; other site 272630013011 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 272630013012 nucleotide binding region [chemical binding]; other site 272630013013 ATP-binding site [chemical binding]; other site 272630013014 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 272630013015 folate binding site [chemical binding]; other site 272630013016 NADP+ binding site [chemical binding]; other site 272630013017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272630013018 Probable transposase; Region: OrfB_IS605; pfam01385 272630013019 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 272630013020 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272630013021 Protein of unknown function (DUF3223); Region: DUF3223; pfam11523 272630013022 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272630013023 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 272630013024 non-specific DNA binding site [nucleotide binding]; other site 272630013025 salt bridge; other site 272630013026 sequence-specific DNA binding site [nucleotide binding]; other site 272630013027 HipA N-terminal domain; Region: Couple_hipA; cl11853 272630013028 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 272630013029 HipA-like N-terminal domain; Region: HipA_N; pfam07805 272630013030 HipA-like C-terminal domain; Region: HipA_C; pfam07804 272630013031 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272630013032 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; cl09944 272630013033 active site 272630013034 phosphorylation site [posttranslational modification] 272630013035 intermolecular recognition site; other site 272630013036 dimerization interface [polypeptide binding]; other site 272630013037 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 272630013038 RHS Repeat; Region: RHS_repeat; cl11982 272630013039 RHS Repeat; Region: RHS_repeat; cl11982 272630013040 RHS protein; Region: RHS; pfam03527 272630013041 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 272630013042 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 272630013043 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272630013044 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630013045 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630013046 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 272630013047 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 272630013048 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013049 Walker A motif; other site 272630013050 ATP binding site [chemical binding]; other site 272630013051 Walker B motif; other site 272630013052 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 272630013053 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272630013054 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272630013055 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 272630013056 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 272630013057 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013058 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630013059 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 272630013060 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 272630013061 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 272630013062 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630013063 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630013064 trimer interface [polypeptide binding]; other site 272630013065 active site 272630013066 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 272630013067 trimer interface [polypeptide binding]; other site 272630013068 active site 272630013069 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 272630013070 Bacterial SH3 domain; Region: SH3_3; cl02551 272630013071 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 272630013072 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 272630013073 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272630013074 Walker A/P-loop; other site 272630013075 ATP binding site [chemical binding]; other site 272630013076 Q-loop/lid; other site 272630013077 ABC transporter signature motif; other site 272630013078 Walker B; other site 272630013079 D-loop; other site 272630013080 H-loop/switch region; other site 272630013081 NMT1-like family; Region: NMT1_2; cl15260 272630013082 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 272630013083 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272630013084 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 272630013085 dimer interface [polypeptide binding]; other site 272630013086 conserved gate region; other site 272630013087 putative PBP binding loops; other site 272630013088 ABC-ATPase subunit interface; other site 272630013089 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272630013090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630013092 Helix-turn-helix domains; Region: HTH; cl00088 272630013093 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 272630013094 putative dimerization interface [polypeptide binding]; other site 272630013095 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630013096 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 272630013097 dimerization interface [polypeptide binding]; other site 272630013098 putative DNA binding site [nucleotide binding]; other site 272630013099 putative Zn2+ binding site [ion binding]; other site 272630013100 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272630013101 active site 272630013102 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 272630013103 ArsC family; Region: ArsC; pfam03960 272630013104 catalytic residues [active] 272630013105 arsenical pump membrane protein; Provisional; Region: PRK15445 272630013106 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 272630013107 transmembrane helices; other site 272630013108 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272630013109 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 272630013110 dimer interface [polypeptide binding]; other site 272630013111 putative functional site; other site 272630013112 putative MPT binding site; other site 272630013113 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 272630013114 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272630013115 putative peptidoglycan binding site; other site 272630013116 NMT1-like family; Region: NMT1_2; cl15260 272630013117 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 272630013118 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 272630013119 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 272630013120 dimer interface [polypeptide binding]; other site 272630013121 phosphorylation site [posttranslational modification] 272630013122 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; cl00075 272630013123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013124 active site 272630013125 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630013126 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630013127 Protein of unknown function (DUF541); Region: SIMPL; cl01077 272630013128 Mrr N-terminal domain; Region: Mrr_N; pfam14338 272630013129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013130 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 272630013131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630013132 active site 272630013133 metal binding site [ion binding]; metal-binding site 272630013134 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630013135 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630013136 active site 272630013137 metal binding site [ion binding]; metal-binding site 272630013138 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272630013139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013140 Family description; Region: UvrD_C_2; cl15862 272630013141 PilZ domain; Region: PilZ; cl01260 272630013142 Restriction endonuclease; Region: Mrr_cat; cl00516 272630013143 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630013144 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272630013145 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272630013146 Cadherin repeat-like domain; Region: CA_like; cl15786 272630013147 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 272630013148 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 272630013149 active site 272630013150 substrate binding site [chemical binding]; other site 272630013151 Mg2+ binding site [ion binding]; other site 272630013152 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 272630013153 Response regulator receiver domain; Region: Response_reg; pfam00072 272630013154 active site 272630013155 phosphorylation site [posttranslational modification] 272630013156 intermolecular recognition site; other site 272630013157 dimerization interface [polypeptide binding]; other site 272630013158 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 272630013159 Cache domain; Region: Cache_1; pfam02743 272630013160 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 272630013161 PAS fold; Region: PAS_7; pfam12860 272630013162 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 272630013163 PAS fold; Region: PAS_7; pfam12860 272630013164 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272630013165 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 272630013166 dimer interface [polypeptide binding]; other site 272630013167 phosphorylation site [posttranslational modification] 272630013168 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 272630013169 ATP binding site [chemical binding]; other site 272630013170 Mg2+ binding site [ion binding]; other site 272630013171 G-X-G motif; other site 272630013172 Response regulator receiver domain; Region: Response_reg; pfam00072 272630013173 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 272630013174 active site 272630013175 phosphorylation site [posttranslational modification] 272630013176 intermolecular recognition site; other site 272630013177 dimerization interface [polypeptide binding]; other site 272630013178 PAS fold; Region: PAS_7; pfam12860 272630013179 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 272630013180 dimer interface [polypeptide binding]; other site 272630013181 phosphorylation site [posttranslational modification] 272630013182 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 272630013183 ATP binding site [chemical binding]; other site 272630013184 Mg2+ binding site [ion binding]; other site 272630013185 G-X-G motif; other site 272630013186 Response regulator receiver domain; Region: Response_reg; pfam00072 272630013187 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 272630013188 active site 272630013189 phosphorylation site [posttranslational modification] 272630013190 intermolecular recognition site; other site 272630013191 dimerization interface [polypeptide binding]; other site 272630013192 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 272630013193 ScpA/B protein; Region: ScpA_ScpB; cl00598 272630013194 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272630013195 Catalytic site; other site 272630013196 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 272630013197 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 272630013198 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272630013199 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272630013200 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 272630013201 Walker A/P-loop; other site 272630013202 ATP binding site [chemical binding]; other site 272630013203 Q-loop/lid; other site 272630013204 ABC transporter signature motif; other site 272630013205 Walker B; other site 272630013206 D-loop; other site 272630013207 H-loop/switch region; other site 272630013208 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 272630013209 putative carbohydrate binding site [chemical binding]; other site 272630013210 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 272630013211 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 272630013212 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 272630013213 active site 272630013214 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 272630013215 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630013216 Bundlin; Region: Bundlin; pfam05307 272630013217 PilS N terminal; Region: PilS; pfam08805 272630013218 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 272630013219 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 272630013220 Probable Catalytic site; other site 272630013221 metal-binding site 272630013222 Bacterial sugar transferase; Region: Bac_transf; cl00939 272630013223 OpgC protein; Region: OpgC_C; cl00792 272630013224 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 272630013225 Potato leaf roll virus readthrough protein; Region: PLRV_ORF5; pfam01690 272630013226 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013227 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 272630013228 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272630013229 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 272630013230 motif II; other site 272630013231 Shikimate kinase; Region: SKI; pfam01202 272630013232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013233 active site 272630013234 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 272630013235 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 272630013236 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272630013237 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272630013238 Domain of unknown function (DUF955); Region: DUF955; cl01076 272630013239 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 272630013240 non-specific DNA binding site [nucleotide binding]; other site 272630013241 salt bridge; other site 272630013242 sequence-specific DNA binding site [nucleotide binding]; other site 272630013243 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 272630013244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013245 ATP binding site [chemical binding]; other site 272630013246 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 272630013247 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 272630013248 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272630013249 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 272630013250 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 272630013251 active site 272630013252 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 272630013253 protein binding site [polypeptide binding]; other site 272630013254 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 272630013255 putative substrate binding region [chemical binding]; other site 272630013256 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 272630013257 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 272630013258 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 272630013259 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 272630013260 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 272630013261 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 272630013262 ADP-ribose binding site [chemical binding]; other site 272630013263 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 272630013264 nucleotide binding site [chemical binding]; other site 272630013265 polymerase nucleotide-binding site; other site 272630013266 primase nucleotide-binding site [nucleotide binding]; other site 272630013267 DNA-binding residues [nucleotide binding]; DNA binding site 272630013268 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272630013269 DHH family; Region: DHH; pfam01368 272630013270 DHHA1 domain; Region: DHHA1; pfam02272 272630013271 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272630013272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013273 DNA helicase II; Region: uvrD; TIGR01075 272630013274 Family description; Region: UvrD_C_2; cl15862 272630013275 AAA-like domain; Region: AAA_10; pfam12846 272630013276 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272630013277 active site 272630013278 catalytic site [active] 272630013279 substrate binding site [chemical binding]; other site 272630013280 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272630013281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013282 Family description; Region: UvrD_C_2; cl15862 272630013283 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 272630013284 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 272630013285 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 272630013286 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 272630013287 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 272630013288 active site 272630013289 interdomain interaction site; other site 272630013290 putative metal-binding site [ion binding]; other site 272630013291 nucleotide binding site [chemical binding]; other site 272630013292 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; cl11986 272630013293 domain I; other site 272630013294 DNA binding groove [nucleotide binding] 272630013295 phosphate binding site [ion binding]; other site 272630013296 domain II; other site 272630013297 domain III; other site 272630013298 nucleotide binding site [chemical binding]; other site 272630013299 catalytic site [active] 272630013300 domain IV; other site 272630013301 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 272630013302 ParB-like nuclease domain; Region: ParBc; cl02129 272630013303 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 272630013304 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272630013305 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 272630013306 P-loop; other site 272630013307 Magnesium ion binding site [ion binding]; other site 272630013308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013309 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272630013310 active site 272630013311 catalytic site [active] 272630013312 substrate binding site [chemical binding]; other site 272630013313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 272630013314 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630013315 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013316 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013317 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 272630013318 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 272630013319 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272630013320 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630013321 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630013322 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 272630013323 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 272630013324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013325 Walker A motif; other site 272630013326 ATP binding site [chemical binding]; other site 272630013327 Walker B motif; other site 272630013328 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272630013329 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 272630013330 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 272630013331 Peptidase M15; Region: Peptidase_M15_3; cl01194 272630013332 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; cl00075 272630013333 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 272630013334 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 272630013335 active site 272630013336 DNA binding site [nucleotide binding] 272630013337 Int/Topo IB signature motif; other site 272630013338 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 catalyze...; Region: LT_GEWL; cd00254 272630013339 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272630013340 catalytic residue [active] 272630013341 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 272630013342 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 272630013343 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 272630013344 active site 272630013345 DNA gyrase subunit A; Validated; Region: PRK05560 272630013346 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 in DNA...; Region: TOP4c; cd00187 272630013347 CAP-like domain; other site 272630013348 active site 272630013349 primary dimer interface [polypeptide binding]; other site 272630013350 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630013351 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630013352 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272630013353 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 272630013354 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; cl15754 272630013355 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 272630013356 cofactor binding site; other site 272630013357 DNA binding site [nucleotide binding] 272630013358 substrate interaction site [chemical binding]; other site 272630013359 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272630013360 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; cl00075 272630013361 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 272630013362 anchoring element; other site 272630013363 dimer interface [polypeptide binding]; other site 272630013364 ATP binding site [chemical binding]; other site 272630013365 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 272630013366 active site 272630013367 putative metal-binding site [ion binding]; other site 272630013368 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272630013369 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 272630013370 HSP70 interaction site [polypeptide binding]; other site 272630013371 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272630013372 substrate binding site [polypeptide binding]; other site 272630013373 dimer interface [polypeptide binding]; other site 272630013374 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630013375 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272630013376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013377 Family description; Region: UvrD_C_2; cl15862 272630013378 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 272630013379 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 272630013380 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630013381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630013382 Transglycosylase; Region: Transgly; cl07896 272630013383 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272630013384 Helix-turn-helix domains; Region: HTH; cl00088 272630013385 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 272630013386 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272630013387 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272630013388 active site 272630013389 HIGH motif; other site 272630013390 KMSK motif region; other site 272630013391 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272630013392 tRNA binding surface [nucleotide binding]; other site 272630013393 anticodon binding site; other site 272630013394 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 272630013395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630013396 putative active site [active] 272630013397 putative metal binding site [ion binding]; other site 272630013398 thymidylate kinase; Region: DTMP_kinase; TIGR00041 272630013399 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 272630013400 TMP-binding site; other site 272630013401 ATP-binding site [chemical binding]; other site 272630013402 hypothetical protein; Validated; Region: PRK09039 272630013403 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 272630013404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013405 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 272630013406 CRISPR/Cas system-associated RAMP superfamily protein Csf2; Region: Csf2_U; cl11864 272630013407 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 272630013408 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272630013409 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630013410 Zn2+ binding site [ion binding]; other site 272630013411 Mg2+ binding site [ion binding]; other site 272630013412 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 272630013413 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 272630013414 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 272630013415 active site 272630013416 DNA binding site [nucleotide binding] 272630013417 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 272630013418 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 272630013419 Catalytic site [active] 272630013420 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013421 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 272630013422 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 272630013423 Ca2+ binding site [ion binding]; other site 272630013424 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 272630013425 TPR motif; other site 272630013426 binding surface 272630013427 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 272630013428 TPR motif; other site 272630013429 binding surface 272630013430 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 272630013431 Cadherin repeat-like domain; Region: CA_like; cl15786 272630013432 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 272630013433 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272630013434 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 272630013435 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 272630013436 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272630013437 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272630013438 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 272630013439 HipA N-terminal domain; Region: Couple_hipA; cl11853 272630013440 HipA-like N-terminal domain; Region: HipA_N; pfam07805 272630013441 HipA-like C-terminal domain; Region: HipA_C; pfam07804 272630013442 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630013443 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl15461 272630013444 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 272630013445 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 272630013446 GIY-YIG motif/motif A; other site 272630013447 putative active site [active] 272630013448 putative metal binding site [ion binding]; other site 272630013449 Competence protein CoiA-like family; Region: CoiA; cl11541 272630013450 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272630013451 Probable transposase; Region: OrfB_IS605; pfam01385 272630013452 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 272630013453 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272630013454 Tetrahydromethanopterin S-methyltransferase, subunit C; Region: MtrC; cl01677 272630013455 chaperone protein dnaJ-related; Provisional; Region: PLN03165 272630013456 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 272630013457 MASE1; Region: MASE1; pfam05231 272630013458 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 272630013459 PAS fold; Region: PAS_4; pfam08448 272630013460 PAS domain S-box; Region: sensory_box; TIGR00229 272630013461 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 272630013462 putative active site [active] 272630013463 heme pocket [chemical binding]; other site 272630013464 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 272630013465 dimer interface [polypeptide binding]; other site 272630013466 phosphorylation site [posttranslational modification] 272630013467 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 272630013468 ATP binding site [chemical binding]; other site 272630013469 Mg2+ binding site [ion binding]; other site 272630013470 G-X-G motif; other site 272630013471 Response regulator receiver domain; Region: Response_reg; pfam00072 272630013472 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 272630013473 active site 272630013474 phosphorylation site [posttranslational modification] 272630013475 intermolecular recognition site; other site 272630013476 dimerization interface [polypeptide binding]; other site 272630013477 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; cl00086 272630013478 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 272630013479 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 272630013480 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630013481 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272630013482 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 272630013483 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630013484 DNA binding residues [nucleotide binding] 272630013485 dimerization interface [polypeptide binding]; other site 272630013486 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630013487 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 272630013488 active site 272630013489 phosphorylation site [posttranslational modification] 272630013490 intermolecular recognition site; other site 272630013491 dimerization interface [polypeptide binding]; other site 272630013492 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 272630013493 DNA binding site [nucleotide binding] 272630013494 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 272630013495 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 272630013496 SWIB/MDM2 domain; Region: SWIB; cl02489 272630013497 AAA domain; Region: AAA_23; pfam13476 272630013498 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272630013499 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630013500 Zn2+ binding site [ion binding]; other site 272630013501 Mg2+ binding site [ion binding]; other site 272630013502 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013503 Predicted transcriptional regulator [Transcription]; Region: COG4957 272630013504 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 272630013505 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 272630013506 active site 272630013507 catalytic site [active] 272630013508 substrate binding site [chemical binding]; other site 272630013509 Endodeoxyribonuclease RusA; Region: RusA; cl01885 272630013510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630013511 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630013512 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272630013513 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013514 Family description; Region: UvrD_C_2; cl15862 272630013515 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272630013516 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272630013517 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 272630013518 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 272630013519 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 272630013520 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 272630013521 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630013522 DNA topoisomerase III; Provisional; Region: PRK07726 272630013523 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 272630013524 active site 272630013525 putative interdomain interaction site [polypeptide binding]; other site 272630013526 putative metal-binding site [ion binding]; other site 272630013527 putative nucleotide binding site [chemical binding]; other site 272630013528 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 272630013529 domain I; other site 272630013530 DNA binding groove [nucleotide binding] 272630013531 phosphate binding site [ion binding]; other site 272630013532 domain II; other site 272630013533 domain III; other site 272630013534 nucleotide binding site [chemical binding]; other site 272630013535 catalytic site [active] 272630013536 domain IV; other site 272630013537 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 272630013538 GRF zinc finger; Region: zf-GRF; pfam06839 272630013539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013541 response regulator GlrR; Provisional; Region: PRK15115 272630013542 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 272630013543 phosphorylation site [posttranslational modification] 272630013544 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 272630013545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013546 Walker A motif; other site 272630013547 ATP binding site [chemical binding]; other site 272630013548 Walker B motif; other site 272630013549 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272630013550 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272630013551 Type II/IV secretion system protein; Region: T2SE; pfam00437 272630013552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013553 Walker A motif; other site 272630013554 ATP binding site [chemical binding]; other site 272630013555 Walker B motif; other site 272630013556 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 272630013557 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272630013558 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 272630013559 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272630013560 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 272630013561 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 272630013562 IHF dimer interface [polypeptide binding]; other site 272630013563 IHF - DNA interface [nucleotide binding]; other site 272630013564 RDD family; Region: RDD; cl00746 272630013565 Initiator Replication protein; Region: Rep_3; cl03080 272630013566 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 272630013567 Catalytic site; other site 272630013568 GcrA cell cycle regulator; Region: GcrA; cl11564 272630013569 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 272630013570 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; cl15754 272630013571 cofactor binding site; other site 272630013572 DNA binding site [nucleotide binding] 272630013573 substrate interaction site [chemical binding]; other site 272630013574 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; cl15754 272630013575 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630013576 DNA binding residues [nucleotide binding] 272630013577 dimerization interface [polypeptide binding]; other site 272630013578 GcrA cell cycle regulator; Region: GcrA; cl11564 272630013579 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272630013580 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; cl15754 272630013581 cofactor binding site; other site 272630013582 DNA binding site [nucleotide binding] 272630013583 substrate interaction site [chemical binding]; other site 272630013584 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 272630013585 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 272630013586 active site 272630013587 DNA binding site [nucleotide binding] 272630013588 Int/Topo IB signature motif; other site 272630013589 potential protein location (hypothetical protein; RMQ09560) that overlaps protein (Hypothetical protein) 272630013590 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 272630013591 non-specific DNA binding site [nucleotide binding]; other site 272630013592 salt bridge; other site 272630013593 sequence-specific DNA binding site [nucleotide binding]; other site 272630013594 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 272630013595 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 272630013596 additional DNA contacts [nucleotide binding]; other site 272630013597 mismatch recognition site; other site 272630013598 active site 272630013599 zinc binding site [ion binding]; other site 272630013600 DNA intercalation site [nucleotide binding]; other site 272630013601 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630013602 putative active site [active] 272630013603 putative metal binding site [ion binding]; other site 272630013604 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 272630013605 active site 272630013606 Int/Topo IB signature motif; other site 272630013607 DNA binding site [nucleotide binding] 272630013608 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 272630013609 active site 272630013610 catalytic site [active] 272630013611 substrate binding site [chemical binding]; other site 272630013612 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 272630013613 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 272630013614 active site 272630013615 phosphorylation site [posttranslational modification] 272630013616 intermolecular recognition site; other site 272630013617 dimerization interface [polypeptide binding]; other site 272630013618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272630013619 Zn2+ binding site [ion binding]; other site 272630013620 Mg2+ binding site [ion binding]; other site 272630013621 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 272630013622 metal ion-dependent adhesion site (MIDAS); other site 272630013623 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 272630013624 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272630013625 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630013626 potential frameshift: common BLAST hit: gi|108804624|ref|YP_644561.1| superfamily I DNA/RNA helicase 272630013627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013628 Family description; Region: UvrD_C_2; cl15862 272630013629 Sporulation related domain; Region: SPOR; cl10051 272630013630 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272630013631 active site 272630013632 metal binding site [ion binding]; metal-binding site 272630013633 Protein of unknown function DUF262; Region: DUF262; cl14890 272630013634 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272630013635 active site 272630013636 DNA polymerase IV; Validated; Region: PRK02406 272630013637 DNA binding site [nucleotide binding] 272630013638 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 272630013639 GIY-YIG motif/motif A; other site 272630013640 active site 272630013641 catalytic site [active] 272630013642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013643 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272630013644 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630013645 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630013646 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 272630013647 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272630013648 Walker A motif; other site 272630013649 ATP binding site [chemical binding]; other site 272630013650 Walker B motif; other site 272630013651 arginine finger; other site 272630013652 Cupin domain; Region: Cupin_2; cl09118 272630013653 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272630013654 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 272630013655 active site 272630013656 catalytic tetrad [active] 272630013657 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 272630013658 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272630013659 active site 272630013660 catalytic tetrad [active] 272630013661 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272630013662 CHAD domain; Region: CHAD; cl10506 272630013663 Cytochrome c; Region: Cytochrom_C; cl11414 272630013664 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 272630013665 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 272630013666 Cytochrome c; Region: Cytochrom_C; cl11414 272630013667 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272630013668 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 272630013669 catalytic loop [active] 272630013670 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 272630013671 iron binding site [ion binding]; other site 272630013672 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272630013673 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630013674 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272630013675 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272630013676 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630013677 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272630013678 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 272630013679 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 272630013680 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 272630013681 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 272630013682 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272630013683 Clp amino terminal domain; Region: Clp_N; pfam02861 272630013684 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 272630013685 Walker A motif; other site 272630013686 ATP binding site [chemical binding]; other site 272630013687 Walker B motif; other site 272630013688 arginine finger; other site 272630013689 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 272630013690 Walker A motif; other site 272630013691 ATP binding site [chemical binding]; other site 272630013692 Walker B motif; other site 272630013693 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630013694 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 272630013695 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272630013696 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 272630013697 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 272630013698 HSP70 interaction site [polypeptide binding]; other site 272630013699 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272630013700 substrate binding site [polypeptide binding]; other site 272630013701 dimer interface [polypeptide binding]; other site 272630013702 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272630013703 potential protein location (hypothetical protein; RMQ06983) that overlaps protein (hypothetical protein) 272630013704 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein; RMQ06983) 272630013705 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 272630013706 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 272630013707 Walker A motif; other site 272630013708 ATP binding site [chemical binding]; other site 272630013709 Walker B motif; other site 272630013710 arginine finger; other site 272630013711 Helix-turn-helix domains; Region: HTH; cl00088 272630013712 Phosphate-starvation-inducible E; Region: PsiE; cl01264 272630013713 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 272630013714 putative dimer interface [polypeptide binding]; other site 272630013715 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 272630013716 putative dimer interface [polypeptide binding]; other site 272630013717 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 272630013718 putative dimer interface [polypeptide binding]; other site 272630013719 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272630013720 Helix-turn-helix domains; Region: HTH; cl00088 272630013721 FtsH Extracellular; Region: FtsH_ext; pfam06480 272630013722 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272630013723 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 272630013724 Walker A motif; other site 272630013725 ATP binding site [chemical binding]; other site 272630013726 Walker B motif; other site 272630013727 arginine finger; other site 272630013728 Peptidase family M41; Region: Peptidase_M41; pfam01434 272630013729 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 272630013730 Clp amino terminal domain; Region: Clp_N; pfam02861 272630013731 Clp amino terminal domain; Region: Clp_N; pfam02861 272630013732 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 272630013733 Walker A motif; other site 272630013734 ATP binding site [chemical binding]; other site 272630013735 Walker B motif; other site 272630013736 arginine finger; other site 272630013737 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 272630013738 Walker A motif; other site 272630013739 ATP binding site [chemical binding]; other site 272630013740 Walker B motif; other site 272630013741 arginine finger; other site 272630013742 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272630013743 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 272630013744 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630013745 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 272630013746 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 272630013747 YfdX protein; Region: YfdX; pfam10938 272630013748 YfdX protein; Region: YfdX; pfam10938 272630013749 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013750 ParA-like protein; Provisional; Region: PHA02518 272630013751 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 272630013752 P-loop; other site 272630013753 Magnesium ion binding site [ion binding]; other site 272630013754 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 272630013755 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 272630013756 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 272630013757 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272630013758 active site 272630013759 catalytic tetrad [active] 272630013760 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272630013761 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272630013762 NAD binding site [chemical binding]; other site 272630013763 catalytic Zn binding site [ion binding]; other site 272630013764 structural Zn binding site [ion binding]; other site 272630013765 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 272630013766 putative hydrophobic ligand binding site [chemical binding]; other site 272630013767 thioredoxin 2; Provisional; Region: PRK10996 272630013768 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 272630013769 catalytic residues [active] 272630013770 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 272630013771 TniQ; Region: TniQ; pfam06527 272630013772 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 272630013773 RNB domain; Region: RNB; pfam00773 272630013774 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 272630013775 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 272630013776 dsRNA binding site [nucleotide binding]; other site 272630013777 transcriptional regulator TraR; Provisional; Region: PRK13870 272630013778 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272630013779 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630013780 DNA binding residues [nucleotide binding] 272630013781 dimerization interface [polypeptide binding]; other site 272630013782 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 272630013783 Autoinducer binding domain; Region: Autoind_bind; pfam03472 272630013784 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630013785 DNA binding residues [nucleotide binding] 272630013786 dimerization interface [polypeptide binding]; other site 272630013787 5'-3' exonuclease; Region: 53EXOc; smart00475 272630013788 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272630013789 active site 272630013790 metal binding site 1 [ion binding]; metal-binding site 272630013791 putative 5' ssDNA interaction site; other site 272630013792 metal binding site 3; metal-binding site 272630013793 metal binding site 2 [ion binding]; metal-binding site 272630013794 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272630013795 putative DNA binding site [nucleotide binding]; other site 272630013796 putative metal binding site [ion binding]; other site 272630013797 DNA primase, catalytic core; Region: dnaG; TIGR01391 272630013798 CHC2 zinc finger; Region: zf-CHC2; cl15369 272630013799 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272630013800 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 272630013801 active site 272630013802 metal binding site [ion binding]; metal-binding site 272630013803 interdomain interaction site; other site 272630013804 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272630013805 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 272630013806 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272630013807 Coenzyme A binding pocket [chemical binding]; other site 272630013808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630013809 DNA polymerase I; Provisional; Region: PRK05755 272630013810 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272630013811 active site 272630013812 metal binding site 1 [ion binding]; metal-binding site 272630013813 putative 5' ssDNA interaction site; other site 272630013814 metal binding site 3; metal-binding site 272630013815 metal binding site 2 [ion binding]; metal-binding site 272630013816 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272630013817 putative DNA binding site [nucleotide binding]; other site 272630013818 putative metal binding site [ion binding]; other site 272630013819 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 272630013820 active site 272630013821 substrate binding site [chemical binding]; other site 272630013822 catalytic site [active] 272630013823 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272630013824 active site 272630013825 DNA binding site [nucleotide binding] 272630013826 catalytic site [active] 272630013827 potential frameshift: common BLAST hit: gi|190410730|ref|YP_001966068.1| DNA-cytosine methyltransferase 272630013828 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; cl15754 272630013829 cofactor binding site; other site 272630013830 DNA binding site [nucleotide binding] 272630013831 substrate interaction site [chemical binding]; other site 272630013832 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; cl15754 272630013833 Restriction endonuclease; Region: Mrr_cat; cl00516 272630013834 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 272630013835 nudix motif; other site 272630013836 Flagellin N-methylase; Region: FliB; cl00497 272630013837 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 272630013838 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 272630013839 AMP-binding site [chemical binding]; other site 272630013840 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272630013841 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272630013842 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 272630013843 ATP binding site [chemical binding]; other site 272630013844 Mg2+ binding site [ion binding]; other site 272630013845 G-X-G motif; other site 272630013846 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272630013847 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 272630013848 active site 272630013849 phosphorylation site [posttranslational modification] 272630013850 intermolecular recognition site; other site 272630013851 dimerization interface [polypeptide binding]; other site 272630013852 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272630013853 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 272630013854 nucleotide binding pocket [chemical binding]; other site 272630013855 K-X-D-G motif; other site 272630013856 catalytic site [active] 272630013857 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272630013858 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272630013859 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 272630013860 Dimer interface [polypeptide binding]; other site 272630013861 BRCT sequence motif; other site 272630013862 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272630013863 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 272630013864 Walker A motif; other site 272630013865 ATP binding site [chemical binding]; other site 272630013866 Walker B motif; other site 272630013867 arginine finger; other site 272630013868 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272630013869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013870 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 272630013871 catalytic site [active] 272630013872 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 272630013873 active site 272630013874 catalytic residue [active] 272630013875 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272630013876 Predicted transporter component [General function prediction only]; Region: COG2391 272630013877 Sulphur transport; Region: Sulf_transp; cl01018 272630013878 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 272630013879 DsrE/DsrF-like family; Region: DrsE; cl00672 272630013880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 272630013881 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630013882 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 272630013883 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630013884 catalytic residues [active] 272630013885 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 272630013886 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 272630013887 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 272630013888 DsbD alpha interface [polypeptide binding]; other site 272630013889 catalytic residues [active] 272630013890 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 272630013891 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 272630013892 active site 272630013893 phosphorylation site [posttranslational modification] 272630013894 intermolecular recognition site; other site 272630013895 dimerization interface [polypeptide binding]; other site 272630013896 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 272630013897 DNA binding site [nucleotide binding] 272630013898 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 272630013899 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 272630013900 dimer interface [polypeptide binding]; other site 272630013901 phosphorylation site [posttranslational modification] 272630013902 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 272630013903 ATP binding site [chemical binding]; other site 272630013904 Mg2+ binding site [ion binding]; other site 272630013905 G-X-G motif; other site 272630013906 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 272630013907 putative Zn2+ binding site [ion binding]; other site 272630013908 putative DNA binding site [nucleotide binding]; other site 272630013909 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 272630013910 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 272630013911 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 272630013912 DPS ferroxidase diiron center [ion binding]; other site 272630013913 dimerization interface [polypeptide binding]; other site 272630013914 ion pore; other site 272630013915 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 272630013916 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272630013917 heme binding site [chemical binding]; other site 272630013918 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 272630013919 heme binding site [chemical binding]; other site 272630013920 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 272630013921 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 272630013922 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 272630013923 ATP binding site [chemical binding]; other site 272630013924 Mg2+ binding site [ion binding]; other site 272630013925 G-X-G motif; other site 272630013926 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272630013927 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 272630013928 active site 272630013929 phosphorylation site [posttranslational modification] 272630013930 intermolecular recognition site; other site 272630013931 dimerization interface [polypeptide binding]; other site 272630013932 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 272630013933 DNA binding site [nucleotide binding] 272630013934 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630013935 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272630013936 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630013937 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 272630013938 RNA polymerase sigma factor; Provisional; Region: PRK12547 272630013939 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630013940 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272630013941 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 272630013942 catalytic residues [active] 272630013943 catalytic nucleophile [active] 272630013944 Recombinase; Region: Recombinase; pfam07508 272630013945 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 272630013946 Response regulator receiver domain; Region: Response_reg; pfam00072 272630013947 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 272630013948 active site 272630013949 phosphorylation site [posttranslational modification] 272630013950 intermolecular recognition site; other site 272630013951 dimerization interface [polypeptide binding]; other site 272630013952 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 272630013953 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; cl02542 272630013954 HSP70 interaction site [polypeptide binding]; other site 272630013955 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 272630013956 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 272630013957 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272630013958 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272630013959 active site 272630013960 HIGH motif; other site 272630013961 dimer interface [polypeptide binding]; other site 272630013962 KMSKS motif; other site 272630013963 enoyl-CoA hydratase; Validated; Region: PRK08788 272630013964 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 272630013965 substrate binding site [chemical binding]; other site 272630013966 oxyanion hole (OAH) forming residues; other site 272630013967 trimer interface [polypeptide binding]; other site 272630013968 PAS fold; Region: PAS_7; pfam12860 272630013969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630013970 metal binding site [ion binding]; metal-binding site 272630013971 active site 272630013972 I-site; other site 272630013973 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 272630013974 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 272630013975 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 272630013976 ATP binding site [chemical binding]; other site 272630013977 putative Mg++ binding site [ion binding]; other site 272630013978 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 272630013979 nucleotide binding region [chemical binding]; other site 272630013980 ATP-binding site [chemical binding]; other site 272630013981 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630013982 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630013983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272630013984 metal binding site [ion binding]; metal-binding site 272630013985 active site 272630013986 I-site; other site 272630013987 preprotein translocase, SecA subunit; Region: secA; TIGR00963 272630013988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013989 ATP binding site [chemical binding]; other site 272630013990 putative Mg++ binding site [ion binding]; other site 272630013991 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272630013992 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 272630013993 nucleotide binding region [chemical binding]; other site 272630013994 ATP-binding site [chemical binding]; other site 272630013995 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 272630013996 Active Sites [active] 272630013997 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 272630013998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630013999 Walker A/P-loop; other site 272630014000 ATP binding site [chemical binding]; other site 272630014001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630014002 ABC transporter signature motif; other site 272630014003 Walker B; other site 272630014004 D-loop; other site 272630014005 H-loop/switch region; other site 272630014006 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 272630014007 AAA-like domain; Region: AAA_10; pfam12846 272630014008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630014009 Abortive infection C-terminus; Region: Abi_C; pfam14355 272630014010 Protein of unknown function DUF262; Region: DUF262; cl14890 272630014011 Protein of unknown function DUF262; Region: DUF262; cl14890 272630014012 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 272630014013 Sel1 repeat; Region: Sel1; cl02723 272630014014 Sel1 repeat; Region: Sel1; cl02723 272630014015 Sel1 repeat; Region: Sel1; cl02723 272630014016 Sel1 repeat; Region: Sel1; cl02723 272630014017 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 272630014018 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272630014019 active site 272630014020 catalytic site [active] 272630014021 substrate binding site [chemical binding]; other site 272630014022 Protein of unknown function DUF91; Region: DUF91; cl00709 272630014023 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272630014024 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 272630014025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630014026 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272630014027 Integrase core domain; Region: rve_3; cl15866 272630014028 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 272630014029 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 272630014030 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630014031 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 272630014032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630014033 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 272630014034 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 272630014035 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 272630014036 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 272630014037 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 272630014038 dimerization interface [polypeptide binding]; other site 272630014039 putative ATP binding site [chemical binding]; other site 272630014040 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630014041 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 272630014042 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 272630014043 FeS/SAM binding site; other site 272630014044 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272630014045 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 272630014046 putative active site [active] 272630014047 catalytic triad [active] 272630014048 putative dimer interface [polypeptide binding]; other site 272630014049 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 272630014050 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 272630014051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630014052 DNA-binding site [nucleotide binding]; DNA binding site 272630014053 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 272630014054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630014055 homodimer interface [polypeptide binding]; other site 272630014056 catalytic residue [active] 272630014057 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 272630014058 putative active site [active] 272630014059 catalytic triad [active] 272630014060 putative dimer interface [polypeptide binding]; other site 272630014061 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272630014062 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 272630014063 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272630014064 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272630014065 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 272630014066 substrate-cofactor binding pocket; other site 272630014067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630014068 catalytic residue [active] 272630014069 Protein of unknown function (DUF983); Region: DUF983; cl02211 272630014070 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 272630014071 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272630014072 DNA-binding site [nucleotide binding]; DNA binding site 272630014073 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 272630014074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272630014075 homodimer interface [polypeptide binding]; other site 272630014076 catalytic residue [active] 272630014077 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 272630014078 gating phenylalanine in ion channel; other site 272630014079 Cytochrome c; Region: Cytochrom_C; cl11414 272630014080 Predicted membrane protein [Function unknown]; Region: COG3918 272630014081 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 272630014082 potential frameshift: common BLAST hit: gi|218529247|ref|YP_002420063.1| Ion transport 2 domain protein 272630014083 Ion channel; Region: Ion_trans_2; cl11596 272630014084 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 272630014085 Protein of unknown function (DUF421); Region: DUF421; cl00990 272630014086 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 272630014087 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272630014088 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 272630014089 active site 272630014090 phosphorylation site [posttranslational modification] 272630014091 intermolecular recognition site; other site 272630014092 dimerization interface [polypeptide binding]; other site 272630014093 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 272630014094 DNA binding residues [nucleotide binding] 272630014095 dimerization interface [polypeptide binding]; other site 272630014096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272630014097 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; cl00075 272630014098 BA14K-like protein; Region: BA14K; pfam07886 272630014099 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 272630014100 formate dehydrogenase; Provisional; Region: PRK07574 272630014101 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272630014102 RWP-RK domain; Region: RWP-RK; pfam02042 272630014103 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 272630014104 putative active site [active] 272630014105 putative metal binding site [ion binding]; other site 272630014106 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 272630014107 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 272630014108 active site 272630014109 DNA binding site [nucleotide binding] 272630014110 Int/Topo IB signature motif; other site 272630014111 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 272630014112 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 272630014113 ATP binding site [chemical binding]; other site 272630014114 putative Mg++ binding site [ion binding]; other site 272630014115 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 272630014116 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 272630014117 ATP-binding site [chemical binding]; other site 272630014118 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 272630014119 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 272630014120 ATP binding site [chemical binding]; other site 272630014121 putative Mg++ binding site [ion binding]; other site 272630014122 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 272630014123 nucleotide binding region [chemical binding]; other site 272630014124 ATP-binding site [chemical binding]; other site 272630014125 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 272630014126 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 272630014127 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 272630014128 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 272630014129 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272630014130 EamA-like transporter family; Region: EamA; cl01037 272630014131 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 272630014132 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 272630014133 putative NAD(P) binding site [chemical binding]; other site 272630014134 dimer interface [polypeptide binding]; other site 272630014135 Cupin domain; Region: Cupin_2; cl09118 272630014136 Helix-turn-helix domains; Region: HTH; cl00088 272630014137 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 272630014138 dimerization interface [polypeptide binding]; other site 272630014139 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272630014140 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 272630014141 Helix-turn-helix domains; Region: HTH; cl00088 272630014142 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 272630014143 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272630014144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272630014145 Helix-turn-helix domains; Region: HTH; cl00088 272630014146 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 272630014147 dimerization interface [polypeptide binding]; other site 272630014148 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 272630014149 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272630014150 putative NAD(P) binding site [chemical binding]; other site 272630014151 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 272630014152 Major royal jelly protein; Region: MRJP; pfam03022 272630014153 Cupin domain; Region: Cupin_2; cl09118 272630014154 Major royal jelly protein; Region: MRJP; pfam03022 272630014155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630014156 active site 272630014157 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 272630014158 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272630014159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272630014160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630014161 NAD(P) binding site [chemical binding]; other site 272630014162 active site 272630014163 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 272630014164 active site 272630014165 metal binding site [ion binding]; metal-binding site 272630014166 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 272630014167 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272630014168 Walker A/P-loop; other site 272630014169 ATP binding site [chemical binding]; other site 272630014170 Q-loop/lid; other site 272630014171 ABC transporter signature motif; other site 272630014172 Walker B; other site 272630014173 D-loop; other site 272630014174 H-loop/switch region; other site 272630014175 NMT1-like family; Region: NMT1_2; cl15260 272630014176 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 272630014177 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 272630014178 dimer interface [polypeptide binding]; other site 272630014179 conserved gate region; other site 272630014180 putative PBP binding loops; other site 272630014181 ABC-ATPase subunit interface; other site 272630014182 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 272630014183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272630014184 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 272630014185 Helix-turn-helix domains; Region: HTH; cl00088 272630014186 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 272630014187 dimerization interface [polypeptide binding]; other site 272630014188 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272630014189 classical (c) SDRs; Region: SDR_c; cd05233 272630014190 NAD(P) binding site [chemical binding]; other site 272630014191 active site 272630014192 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272630014193 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272630014194 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 272630014195 potential frameshift: common BLAST hit: gi|220927223|ref|YP_002502525.1| protein of unknown function DUF1254 272630014196 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 272630014197 Uncharacterized conserved protein [Function unknown]; Region: COG5361 272630014198 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 272630014199 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 272630014200 AAA domain; Region: AAA_22; pfam13401 272630014201 TniQ; Region: TniQ; pfam06527 272630014202 elongation factor Ts; Region: tsf; CHL00098 272630014203 Protein of unknown function, DUF488; Region: DUF488; cl01246 272630014204 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 272630014205 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 272630014206 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 272630014207 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 272630014208 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 272630014209 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272630014210 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272630014211 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 272630014212 Active Sites [active] 272630014213 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 272630014214 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272630014215 RNA/DNA hybrid binding site [nucleotide binding]; other site 272630014216 active site 272630014217 AAA domain; Region: AAA_33; pfam13671 272630014218 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 272630014219 PAS fold; Region: PAS_4; pfam08448 272630014220 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272630014221 Histidine kinase; Region: HisKA_2; cl06527 272630014222 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 272630014223 Predicted membrane protein [Function unknown]; Region: COG3766 272630014224 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 272630014225 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 272630014226 active site 272630014227 catalytic triad [active] 272630014228 calcium binding site 1 [ion binding]; other site 272630014229 calcium binding site 2 [ion binding]; other site 272630014230 calcium binding site 3 [ion binding]; other site 272630014231 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 272630014232 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630014233 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 272630014234 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 272630014235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272630014236 Walker A/P-loop; other site 272630014237 ATP binding site [chemical binding]; other site 272630014238 Q-loop/lid; other site 272630014239 ABC transporter signature motif; other site 272630014240 Walker B; other site 272630014241 D-loop; other site 272630014242 H-loop/switch region; other site 272630014243 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 272630014244 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272630014245 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 272630014246 dimer interface [polypeptide binding]; other site 272630014247 phosphorylation site [posttranslational modification] 272630014248 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 272630014249 ATP binding site [chemical binding]; other site 272630014250 Mg2+ binding site [ion binding]; other site 272630014251 G-X-G motif; other site 272630014252 Response regulator receiver domain; Region: Response_reg; pfam00072 272630014253 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 272630014254 active site 272630014255 phosphorylation site [posttranslational modification] 272630014256 intermolecular recognition site; other site 272630014257 dimerization interface [polypeptide binding]; other site 272630014258 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272630014259 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 272630014260 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 272630014261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272630014262 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272630014263 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 272630014264 DNA binding residues [nucleotide binding] 272630014265 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272630014266 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630014267 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630014268 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 272630014269 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272630014270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 272630014271 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 272630014272 Probable transposase; Region: OrfB_IS605; pfam01385 272630014273 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 272630014274 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 272630014275 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 272630014276 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272630014277 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 272630014278 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272630014279 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 272630014280 Walker A/P-loop; other site 272630014281 ATP binding site [chemical binding]; other site 272630014282 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272630014283 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 272630014284 ABC transporter signature motif; other site 272630014285 Walker B; other site 272630014286 D-loop; other site 272630014287 H-loop/switch region; other site 272630014288 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 272630014289 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 272630014290 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 272630014291 putative lyase; Provisional; Region: PRK09687 272630014292 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 272630014293 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 272630014294 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 272630014295 Walker A motif; other site 272630014296 ATP binding site [chemical binding]; other site 272630014297 Walker B motif; other site