Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 41110.68 
• Atom Count: 2469 
• Residue Count: 356 
• Unique protein chains: 1

1ANV

ADENOVIRUS 5 DBP/URANYL FLUORIDE SOAK

• DOI: 10.2210/pdb1ANV/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Human adenovirus C serotype 5


• Deposited: 1996-03-14 Released: 1997-02-12 
• Deposition Author(s): Kanellopoulos, P.N., Tsernoglou, D., Van Der Vliet, P.C., Tucker, P.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.310 
• R-Value Work: 0.204 

Literature

Conformational change of the adenovirus DNA-binding protein induced by soaking crystals with K3UO2F5 solutions.

Kanellopoulos, P.N., Tsernoglou, D., van der Vliet, P.C., Tucker, P.A.

(1996) Acta Crystallogr.,Sect.D 52: 942-945

• PubMed: 15299602 
• DOI: 10.1107/S0907444996005525


• PubMed Abstract: 
  

Soaking crystals of the C-terminal DNA-binding domain of the adenovirus single-stranded DNA-binding protein with a buffer containing K(3)UO(2)F(5) results in a 9% change of the crystallographic c axis without destruction of the crystals or appreciable loss of resolution. The crystals belong to space group P2(1)2(1)2(1) with a = 79.7, b = 75.6 and c = 60.6 A. The three-dimensional structure has been refined to 2.7 A with a crystallographic R factor of 0.206. Antiparallel chains of protein molecules running through the entire crystal are linked by uranyl ions. The relative orientation of protein monomers is flexible, even in the crystalline state, and allows changes in the packing of the protein chains.

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Related Citations: 

• Crystal Structure of the Adenovirus DNA Binding Protein Reveals a Hook-on Model for Cooperative DNA Binding
  Tucker, P.A.,Tsernoglou, D.,Tucker, A.D.,Coenjaerts, F.E.,Leenders, H.,Van Der Vliet, P.C.
  (1994) Embo J. 13: 2994
• Alternative Arrangements of the Protein Chain are Possible for the Adenovirus Single-Stranded DNA Binding Protein
  Kanellopoulos, P.N.,Tsernoglou, D.,Van Der Vliet, P.C.,Tucker, P.A.
  (1996) J.Mol.Biol. 257: 1




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Organizational Affiliation: 

Structural Biology Programme, European Molecular Biology Laboratory, Heidelberg, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ADENOVIRUS SINGLE-STRANDED DNA-BINDING PROTEIN	A	356	Human adenovirus C serotype 5	Mutation(s): 0  Gene Names: DBP
Find proteins for P03265 (Human adenovirus C serotype 5) Go to Gene View: DBP Go to UniProtKB:  P03265

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
IUM	A	URANYL (VI) ION O2 U IZLHQJIUOZHTLW-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.310 
• R-Value Work: 0.204 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 79.700	α = 90.00
b = 75.600	β = 90.00
c = 60.600	γ = 90.00

Software Package:

Software Name	Purpose
XDS	data scaling
TNT	refinement
XDS	data reduction
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-03-14 
• Released Date: 1997-02-12 
• Deposition Author(s): Kanellopoulos, P.N., Tsernoglou, D., Van Der Vliet, P.C., Tucker, P.A.

Revision History 

• Version 1.0: 1997-02-12
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2018-04-04
  Type: Data collection, Structure summary