+Open data
-Basic information
Entry | Database: PDB / ID: 1vqi | ||||||
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Title | GENE V PROTEIN MUTANT WITH ILE 47 REPLACED BY VAL 47 (I47V) | ||||||
Components | GENE V PROTEIN | ||||||
Keywords | DNA BINDING PROTEIN / DNA-BINDING PROTEIN / GENE V / MUTANT | ||||||
Function / homology | Function and homology information rolling circle single-stranded viral DNA replication / single-stranded DNA binding / DNA replication Similarity search - Function | ||||||
Biological species | Enterobacteria phage f1 (virus) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | ||||||
Authors | Zhang, H. / Skinner, M.M. / Sandberg, W.S. / Wang, A.H.-J. / Terwilliger, T.C. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1996 Title: Context dependence of mutational effects in a protein: the crystal structures of the V35I, I47V and V35I/I47V gene V protein core mutants. Authors: Zhang, H. / Skinner, M.M. / Sandberg, W.S. / Wang, A.H. / Terwilliger, T.C. #1: Journal: Acta Crystallogr.,Sect.D / Year: 1995 Title: Difference Refinement: Obtaining Differences between Two Related Structures Authors: Terwilliger, T.C. / Berendzen, J. #2: Journal: Proc.Natl.Acad.Sci.USA / Year: 1994 Title: Structure of the Gene V Protein of Bacteriophage F1 Determined by Multiwavelength X-Ray Diffraction on the Selenomethionyl Protein Authors: Skinner, M.M. / Zhang, H. / Leschnitzer, D.H. / Guan, Y. / Bellamy, H. / Sweet, R.M. / Gray, C.W. / Konings, R.N. / Wang, A.H. / Terwilliger, T.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1vqi.cif.gz | 31.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1vqi.ent.gz | 21.1 KB | Display | PDB format |
PDBx/mmJSON format | 1vqi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1vqi_validation.pdf.gz | 354.5 KB | Display | wwPDB validaton report |
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Full document | 1vqi_full_validation.pdf.gz | 354.6 KB | Display | |
Data in XML | 1vqi_validation.xml.gz | 2.9 KB | Display | |
Data in CIF | 1vqi_validation.cif.gz | 4.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vq/1vqi ftp://data.pdbj.org/pub/pdb/validation_reports/vq/1vqi | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 9685.188 Da / Num. of mol.: 1 / Mutation: I47V Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage f1 (virus) / Genus: Inovirus / Species: Enterobacteria phage M13 / Production host: Escherichia coli (E. coli) / References: UniProt: P69543 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 45 % | |||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 7.5 / Method: vapor diffusion | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.5418 |
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Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 1, 1994 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Num. obs: 7906 / % possible obs: 96.1 % / Redundancy: 5 % / Rmerge(I) obs: 0.041 |
Reflection | *PLUS Highest resolution: 1.8 Å / Num. measured all: 47811 |
-Processing
Software |
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Refinement | Resolution: 1.8→5 Å / σ(F): 2 Details: SIDE CHAIN DISORDERED DENSITY FOR GLN 12 IS MODELED STEREOCHEMICALLY.
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Displacement parameters | Biso mean: 20 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.19 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→5 Å
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Refine LS restraints |
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Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |