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Yorodumi- PDB-1cdt: CARDIOTOXIN V4/II FROM NAJA MOSSAMBICA MOSSAMBICA: THE REFINED CR... -
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-Basic information
Entry | Database: PDB / ID: 1cdt | ||||||
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Title | CARDIOTOXIN V4/II FROM NAJA MOSSAMBICA MOSSAMBICA: THE REFINED CRYSTAL STRUCTURE | ||||||
Components | CARDIOTOXIN VII4 | ||||||
Keywords | CYTOTOXIN | ||||||
Function / homology | Function and homology information cytolysis / other organism cell membrane / : / toxin activity / extracellular region / membrane Similarity search - Function | ||||||
Biological species | Naja mossambica (Mozambique cobra) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.5 Å | ||||||
Authors | Rees, B. / Bilwes, A. / Samama, J.P. / Moras, D. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1990 Title: Cardiotoxin VII4 from Naja mossambica mossambica. The refined crystal structure. Authors: Rees, B. / Bilwes, A. / Samama, J.P. / Moras, D. #1: Journal: Proc.Natl.Acad.Sci.USA / Year: 1987 Title: Crystal Structure of a Snake Venom Cardiotoxin Authors: Rees, B. / Samama, J.P. / Thierry, J.C. / Gilibert, M. / Fischer, J. / Schweitz, H. / Lazdunski, M. / Moras, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cdt.cif.gz | 29.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cdt.ent.gz | 24 KB | Display | PDB format |
PDBx/mmJSON format | 1cdt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cd/1cdt ftp://data.pdbj.org/pub/pdb/validation_reports/cd/1cdt | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: SOLVENT OCCUPANCIES WERE REFINED WITHOUT SETTING AN UPPER BOUND. VALUES LARGE THAN 1.0 ARE INDICATIVE OF THE INTRINSIC INACCURACY OF THIS PARAMETER AND OF ITS LARGE CORRELATION WITH THE TEMPERATURE FACTOR. |
-Components
#1: Protein | Mass: 6727.321 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Naja mossambica (Mozambique cobra) / References: UniProt: P01452 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.45 Å3/Da / Density % sol: 64.39 % | ||||||||||||
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Crystal grow | *PLUS Method: unknown | ||||||||||||
Components of the solutions | *PLUS
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-Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||
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Refinement | Resolution: 2.5→5 Å Details: SOLVENT OCCUPANCIES WERE REFINED WITHOUT SETTING AN UPPER BOUND. VALUES LARGE THAN 1.0 ARE INDICATIVE OF THE INTRINSIC INACCURACY OF THIS PARAMETER AND OF ITS LARGE CORRELATION WITH THE TEMPERATURE FACTOR.
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Refinement step | Cycle: LAST / Resolution: 2.5→5 Å
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Refine LS restraints |
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Refinement | *PLUS σ(F): 3 / Highest resolution: 2.5 Å / Lowest resolution: 5 Å / Num. reflection obs: 4002 / Rfactor obs: 0.197 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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