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Yorodumi- PDB-8bwb: Spider toxin Pha1b (PnTx3-6) from Phoneutria nigriventer targetin... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8bwb | ||||||
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Title | Spider toxin Pha1b (PnTx3-6) from Phoneutria nigriventer targeting CaV2.x calcium channels and TRPA1 channel | ||||||
Components | Omega-ctenitoxin-Pn4a | ||||||
Keywords | TOXIN / spider toxin / neurotoxin / cystine-knot peptide / antagonist of CaV2.x calcium channels and TRPA1 channel | ||||||
Function / homology | calcium channel regulator activity / toxin activity / extracellular region / Omega-ctenitoxin-Pn4a Function and homology information | ||||||
Biological species | Phoneutria nigriventer (Brazilian armed spider) | ||||||
Method | SOLUTION NMR / distance geometry | ||||||
Authors | Mironov, P.A. / Chernaya, E.M. / Paramonov, A.S. / Shenkarev, Z.O. | ||||||
Funding support | Russian Federation, 1items
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Citation | Journal: Toxins / Year: 2023 Title: Recombinant Production, NMR Solution Structure, and Membrane Interaction of the Ph alpha 1 beta Toxin, a TRPA1 Modulator from the Brazilian Armed Spider Phoneutria nigriventer . Authors: Lyukmanova, E.N. / Mironov, P.A. / Kulbatskii, D.S. / Shulepko, M.A. / Paramonov, A.S. / Chernaya, E.M. / Logashina, Y.A. / Andreev, Y.A. / Kirpichnikov, M.P. / Shenkarev, Z.O. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8bwb.cif.gz | 308.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8bwb.ent.gz | 261.2 KB | Display | PDB format |
PDBx/mmJSON format | 8bwb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8bwb_validation.pdf.gz | 462.4 KB | Display | wwPDB validaton report |
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Full document | 8bwb_full_validation.pdf.gz | 640 KB | Display | |
Data in XML | 8bwb_validation.xml.gz | 33.6 KB | Display | |
Data in CIF | 8bwb_validation.cif.gz | 37.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bw/8bwb ftp://data.pdbj.org/pub/pdb/validation_reports/bw/8bwb | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6055.089 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Phoneutria nigriventer (Brazilian armed spider) Plasmid: pET-32a(+) / Production host: Escherichia coli (E. coli) / References: UniProt: P81792 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | Ionic strength: 1 mM / Label: condition_1 / pH: 4.5 / Pressure: AMBIENT Pa / Temperature: 303 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: distance geometry / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: target function | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 200 / Conformers submitted total number: 20 |