+Open data
-Basic information
Entry | Database: PDB / ID: 1anv | ||||||
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Title | ADENOVIRUS 5 DBP/URANYL FLUORIDE SOAK | ||||||
Components | ADENOVIRUS SINGLE-STRANDED DNA-BINDING PROTEIN | ||||||
Keywords | DNA BINDING PROTEIN / EARLY PROTEIN / DNA-BINDING PROTEIN / ZINC-FINGER / PHOSPHORYLATION / NUCLEAR PROTEIN | ||||||
Function / homology | Function and homology information viral DNA strand displacement replication / viral DNA genome replication / DNA duplex unwinding / DNA unwinding involved in DNA replication / positive regulation of DNA replication / viral capsid / single-stranded DNA binding / DNA-templated transcription / host cell nucleus / DNA binding ...viral DNA strand displacement replication / viral DNA genome replication / DNA duplex unwinding / DNA unwinding involved in DNA replication / positive regulation of DNA replication / viral capsid / single-stranded DNA binding / DNA-templated transcription / host cell nucleus / DNA binding / zinc ion binding / identical protein binding Similarity search - Function | ||||||
Biological species | Human adenovirus 5 | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.7 Å | ||||||
Authors | Kanellopoulos, P.N. / Tsernoglou, D. / Van Der Vliet, P.C. / Tucker, P.A. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 1996 Title: Conformational change of the adenovirus DNA-binding protein induced by soaking crystals with K3UO2F5 solutions. Authors: Kanellopoulos, P.N. / Tsernoglou, D. / van der Vliet, P.C. / Tucker, P.A. #1: Journal: J.Mol.Biol. / Year: 1996 Title: Alternative Arrangements of the Protein Chain are Possible for the Adenovirus Single-Stranded DNA Binding Protein Authors: Kanellopoulos, P.N. / Tsernoglou, D. / Van Der Vliet, P.C. / Tucker, P.A. #2: Journal: Embo J. / Year: 1994 Title: Crystal Structure of the Adenovirus DNA Binding Protein Reveals a Hook-on Model for Cooperative DNA Binding Authors: Tucker, P.A. / Tsernoglou, D. / Tucker, A.D. / Coenjaerts, F.E. / Leenders, H. / Van Der Vliet, P.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1anv.cif.gz | 72.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1anv.ent.gz | 56.5 KB | Display | PDB format |
PDBx/mmJSON format | 1anv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/an/1anv ftp://data.pdbj.org/pub/pdb/validation_reports/an/1anv | HTTPS FTP |
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-Related structure data
Related structure data | 1adt S: Starting model for refinement |
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Similar 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: 39899.746 Da / Num. of mol.: 1 / Fragment: C-TERMINAL DOMAIN, RESIDUES 174 - 529 / Source method: isolated from a natural source / Source: (natural) Human adenovirus 5 / Genus: Mastadenovirus / Species: Human adenovirus C / References: UniProt: P03265 | ||||
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#2: Chemical | #3: Chemical | ChemComp-IUM / #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.29 Å3/Da / Density % sol: 46.21 % | |||||||||||||||
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Crystal grow | pH: 5.8 / Details: pH 5.8 | |||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion / Details: Tsernoglou, D., (1984) J. Mol. Biol., 172, 237. | |||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: ROTATING ANODE / Type: MACSCIENCE M18X / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 27, 1994 |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→15 Å / Num. obs: 10312 / % possible obs: 98.7 % / Observed criterion σ(I): 0 / Redundancy: 3.4 % / Rmerge(I) obs: 0.147 |
Reflection shell | Resolution: 2.7→3.2 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.342 / % possible all: 99.7 |
Reflection | *PLUS Num. measured all: 34497 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1ADT 1adt Resolution: 2.7→15 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 2.7→15 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.206 / Rfactor Rfree: 0.314 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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