+Open data
-Basic information
Entry | Database: PDB / ID: 1bu2 | ||||||
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Title | X-RAY STRUCTURE OF A VIRAL CYCLIN FROM HERPESVIRUS SAIMIRI | ||||||
Components | CYCLIN HOMOLOG | ||||||
Keywords | CELL CYCLE REGULATION / HERPESVIRUS SAIMIRI / VIRAL CYCLIN | ||||||
Function / homology | Function and homology information cyclin-dependent protein serine/threonine kinase regulator activity / cyclin-dependent protein kinase holoenzyme complex / cell division / cytoplasm Similarity search - Function | ||||||
Biological species | Herpesvirus saimiri | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3 Å | ||||||
Authors | Schulze-Gahmen, U. / Jung, J.U. / Kim, S.-H. | ||||||
Citation | Journal: Structure Fold.Des. / Year: 1999 Title: Crystal structure of a viral cyclin, a positive regulator of cyclin-dependent kinase 6. Authors: Schulze-Gahmen, U. / Jung, J.U. / Kim, S.H. #1: Journal: Mol.Cell.Biol. / Year: 1994 Title: Virus-Encoded Cyclin Authors: Jung, J.U. / Staeger, M. / Desrosier, R.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1bu2.cif.gz | 50.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1bu2.ent.gz | 36.1 KB | Display | PDB format |
PDBx/mmJSON format | 1bu2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1bu2_validation.pdf.gz | 423.5 KB | Display | wwPDB validaton report |
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Full document | 1bu2_full_validation.pdf.gz | 432 KB | Display | |
Data in XML | 1bu2_validation.xml.gz | 11.1 KB | Display | |
Data in CIF | 1bu2_validation.cif.gz | 13.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bu/1bu2 ftp://data.pdbj.org/pub/pdb/validation_reports/bu/1bu2 | HTTPS FTP |
-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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-Components
#1: Protein | Mass: 25849.154 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Herpesvirus saimiri (strain 11) / Genus: Rhadinovirus / Species: Saimiriine herpesvirus 2 / Strain: 11 / Gene: ECLF2 / Plasmid: PQE9 / Production host: Escherichia coli (E. coli) / Strain (production host): DH5ALPHADE3 PACYC / References: UniProt: Q01043 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.94 Å3/Da / Density % sol: 58.18 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7 / Details: pH 7.0 | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 22 ℃ / Method: vapor diffusion, sitting drop | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12B / Wavelength: 0.9471 |
Detector | Type: MARRESEARCH / Date: Nov 1, 1995 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9471 Å / Relative weight: 1 |
Reflection | Resolution: 3→20 Å / Num. obs: 6501 / % possible obs: 98.9 % / Redundancy: 4 % / Biso Wilson estimate: 69.2 Å2 / Rsym value: 0.95 / Net I/σ(I): 11.5 |
Reflection | *PLUS Num. measured all: 23083 / Rmerge(I) obs: 0.095 |
Reflection shell | *PLUS % possible obs: 99.8 % / Rmerge(I) obs: 0.35 / Mean I/σ(I) obs: 2.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3→20 Å / Rfactor Rfree error: 0.012 / Data cutoff high rms absF: 1077669.13 / Isotropic thermal model: GROUP / Cross valid method: THROUGHOUT / σ(F): 2 / Details: BULK SOLVENT MODEL USED
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Displacement parameters | Biso mean: 64.7 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3→3.19 Å / Rfactor Rfree error: 0.044 / Total num. of bins used: 6
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Xplor file |
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Software | *PLUS Name: CNS / Version: 0.3 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.324 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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