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Yorodumi- PDB-6mzt: Solution structure of alpha-KTx-6.21 (UroTx) from Urodacus yaschenkoi -
+Open data
-Basic information
Entry | Database: PDB / ID: 6mzt | ||||||
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Title | Solution structure of alpha-KTx-6.21 (UroTx) from Urodacus yaschenkoi | ||||||
Components | Potassium channel toxin alpha-KTx 6.21 | ||||||
Keywords | TOXIN / Scopion toxin / Cysteine-stabilized alpha-beta motif | ||||||
Function / homology | Scorpion short chain toxin, potassium channel inhibitor / Scorpion short toxin, BmKK2 / Knottin, scorpion toxin-like superfamily / ion channel inhibitor activity / : / toxin activity / extracellular region / Potassium channel toxin alpha-KTx 6.21 Function and homology information | ||||||
Biological species | Urodacus yaschenkoi (scorpion) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Chin, Y.K.-Y. / Luna-Ramirez, K. / Anangi, R. / King, G.F. | ||||||
Citation | Journal: Biochem. Pharmacol. / Year: 2020 Title: Structural basis of the potency and selectivity of Urotoxin, a potent Kv1 blocker from scorpion venom. Authors: Luna-Ramirez, K. / Csoti, A. / McArthur, J.R. / Chin, Y.K.Y. / Anangi, R. / Najera, R.D.C. / Possani, L.D. / King, G.F. / Panyi, G. / Yu, H. / Adams, D.J. / Finol-Urdaneta, R.K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6mzt.cif.gz | 241.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6mzt.ent.gz | 204.6 KB | Display | PDB format |
PDBx/mmJSON format | 6mzt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mz/6mzt ftp://data.pdbj.org/pub/pdb/validation_reports/mz/6mzt | HTTPS FTP |
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-Related structure data
Similar structure data | |
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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/peptide | Mass: 4028.794 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Urodacus yaschenkoi (scorpion) / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: P0DL37 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 200 uM [U-13C; U-15N] UroTx, 20 mM sodium acetate, 5 % D2O, 95% H2O/5% D2O Label: Sample 1 / Solvent system: 95% H2O/5% D2O | ||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0 Not defined / Label: condition1 / pH: 5 / Pressure: 1 atm / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 900 MHz |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy and the best stereochemical properties Conformers calculated total number: 30 / Conformers submitted total number: 20 |