Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 77.80 kDa 
• Atom Count: 3737 
• Modelled Residue Count: 468 
• Deposited Residue Count: 718 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

1EQQ

SINGLE STRANDED DNA BINDING PROTEIN AND SSDNA COMPLEX

• PDB DOI: 10.2210/pdb1EQQ/pdb
• NDB: PR0048

• Classification: REPLICATION/RNA
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-04-06 Released: 2003-09-23 
• Deposition Author(s): Matsumoto, T., Morimoto, Y., Shibata, N., Yasuoka, N., Shimamoto, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.339 
• R-Value Work: 0.213 
• R-Value Observed: 0.213 

Literature

Roles of functional loops and the C-terminal segment of a single-stranded DNA binding protein elucidated by X-Ray structure analysis

Matsumoto, T., Morimoto, Y., Shibata, N., Kinebuchi, T., Shimamoto, N., Tsukihara, T., Yasuoka, N.

(2000) J Biochem 127: 329-335

• PubMed: 10731701 
• DOI: 10.1093/oxfordjournals.jbchem.a022611
• Primary Citation of Related Structures:  
  1EQQ, 1QVC


• PubMed Abstract: 
  

The single-stranded DNA (ssDNA) binding protein from Escherichia coli (EcoSSB) plays a central role in DNA replication, recombination and repair. The tertiary structure of EcoSSB was determined at 2.2 A resolution. This is rather higher resolution than previously reported. Crystals were grown from the homogeneous intact protein but the EcoSSB tetramer in the crystals contains truncated subunits lacking a part of the C-terminal. The structure determined includes biologically important flexible loops and C-terminal regions, and revealed the existence of concavities. These concavities include the residues important for ssDNA binding. An ssDNA can be fitted on the concavities and further stabilized through interactions with the loops forming flexible lids. It seems likely to play a central role in the binding of ssDNA.

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Organizational Affiliation: 

Department of Life Science, Himeji Institute of Technology, Kamigori, Ako-gun, Hyogo 678-1297, Japan.

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
SINGLE STRANDED DNA BINDING PROTEIN	C [auth A], D [auth B], E [auth C], F [auth D]	178	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P0AGE0 (Escherichia coli (strain K12)) Explore P0AGE0  Go to UniProtKB:  P0AGE0

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-R(*(5MU)P*(5MU)P*(5MU))-3'	A [auth M], B [auth N]	3	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.339 
• R-Value Work: 0.213 
• R-Value Observed: 0.213 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.714	α = 90
b = 60.473	β = 112.602
c = 94.733	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
CNS	refinement
CCP4	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-04-06 
• Released Date: 2003-09-23 
Deposition Author(s): Matsumoto, T., Morimoto, Y., Shibata, N., Yasuoka, N., Shimamoto, N.

Revision History  

• Version 1.0: 2003-09-23
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-04-04
  Changes: Data collection