+Open data
-Basic information
Entry | Database: PDB / ID: 1w9z | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of Bannavirus VP9 | ||||||
Components | VP9 | ||||||
Keywords | VIRUS COAT PROTEIN / DSRNA VIRUS / OUTER CORE PROTEIN | ||||||
Function / homology | Recoverin; domain 1 / Reoviridae VP9, N-terminal domain / Outer capsid protein VP9/VP10/VP11 / Outer capsid protein VP9, N-terminal / Reoviridae VP9 / Helix non-globular / Special / identical protein binding / VP9 Function and homology information | ||||||
Biological species | BANNA VIRUS | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.56 Å | ||||||
Authors | Jaafar, F.M. / Attoui, H. / Bahar, M.W. / Siebold, C. / Sutton, G. / Mertens, P.P.C. / Micco, P. / Stuart, D.I. / Grimes, J.M. / Lamballerie, X. | ||||||
Citation | Journal: Structure / Year: 2005 Title: The Structure and Function of the Outer Coat Protein Vp9 of Banna Virus Authors: Jaafar, F.M. / Attoui, H. / Bahar, M.W. / Siebold, C. / Sutton, G. / Mertens, P.P.C. / De Micco, P. / Stuart, D.I. / Grimes, J.M. / De Lamballerie, X. | ||||||
History |
| ||||||
Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1w9z.cif.gz | 154.1 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1w9z.ent.gz | 123.3 KB | Display | PDB format |
PDBx/mmJSON format | 1w9z.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/w9/1w9z ftp://data.pdbj.org/pub/pdb/validation_reports/w9/1w9z | HTTPS FTP |
---|
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
Unit cell |
| ||||||||||||
Noncrystallographic symmetry (NCS) | NCS oper:
|
-Components
#1: Protein | Mass: 30542.080 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) BANNA VIRUS / Strain: BAV-CH / Plasmid: PGEX-4T-2 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 / Variant (production host): BL-CODONPLUS(DE3)-RP-X / References: UniProt: Q9YWN5 #2: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.41 Å3/Da / Density % sol: 49.07 % / Description: NO NATIVE DATA WERE COLLECTED |
---|---|
Crystal grow | pH: 8 Details: 0.1 M HEPES-NA, PH 7.5, 20% (W/V) POLYETHYLENE GLYCOL 4000, 10% (V/V) ISO-PROPANOL |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: BM14 / Wavelength: 0.87, 0.97 | |||||||||
Detector | Type: MARRESEARCH / Detector: CCD / Date: Oct 8, 2003 / Details: MIRRORS | |||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
| |||||||||
Reflection | Resolution: 2.55→30 Å / Num. obs: 27995 / % possible obs: 99.3 % / Observed criterion σ(I): 0 / Redundancy: 3.1 % / Rmerge(I) obs: 0.09 / Net I/σ(I): 10.6 | |||||||||
Reflection shell | Resolution: 2.55→2.64 Å / Redundancy: 3 % / Rmerge(I) obs: 0.41 / Mean I/σ(I) obs: 2 / % possible all: 99.3 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MAD / Resolution: 2.56→94.92 Å / SU B: 21.923 / SU ML: 0.233 / Cross valid method: THROUGHOUT / ESU R: 0.743 / ESU R Free: 0.309
| ||||||||||||||||||||
Displacement parameters | Biso mean: 19.105 Å2
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.56→94.92 Å
|