4DAM

Crystal structure of small single-stranded DNA-binding protein from Streptomyces coelicolor

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structure-function relationships of two paralogous single-stranded DNA-binding proteins from Streptomyces coelicolor: implication of SsbB in chromosome segregation during sporulation.

Paradzik, T., Ivic, N., Filic, Z., Manjasetty, B.A., Herron, P., Luic, M., Vujaklija, D.

(2013) Nucleic Acids Res 41: 3659-3672

  • DOI: 10.1093/nar/gkt050
  • Primary Citation of Related Structures:  
    4DAM

  • PubMed Abstract: 

    • The linear chromosome of Streptomyces coelicolor contains two paralogous ssb genes, ssbA and ssbB. Following mutational analysis, we concluded that ssbA is essential, whereas ssbB plays a key role in chromosome segregation during sporulation. In the ssbB ...

    The linear chromosome of Streptomyces coelicolor contains two paralogous ssb genes, ssbA and ssbB. Following mutational analysis, we concluded that ssbA is essential, whereas ssbB plays a key role in chromosome segregation during sporulation. In the ssbB mutant, ∼30% of spores lacked DNA. The two ssb genes were expressed differently; in minimal medium, gene expression was prolonged for both genes and significantly upregulated for ssbB. The ssbA gene is transcribed as part of a polycistronic mRNA from two initiation sites, 163 bp and 75 bp upstream of the rpsF translational start codon. The ssbB gene is transcribed as a monocistronic mRNA, from an unusual promoter region, 73 bp upstream of the AUG codon. Distinctive DNA-binding affinities of single-stranded DNA-binding proteins monitored by tryptophan fluorescent quenching and electrophoretic mobility shift were observed. The crystal structure of SsbB at 1.7 Å resolution revealed a common OB-fold, lack of the clamp-like structure conserved in SsbA and previously unpublished S-S bridges between the A/B and C/D subunits. This is the first report of the determination of paralogous single-stranded DNA-binding protein structures from the same organism. Phylogenetic analysis revealed frequent duplication of ssb genes in Actinobacteria, whereas their strong retention suggests that they are involved in important cellular functions.

    Organizational Affiliation: 

    Division of Molecular Biology, Rudjer Boskovic Institute, Zagreb 10002, Croatia.



Macromolecules
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(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Single-stranded DNA-binding protein 1A, B, C, D, E, F, G, H, A,  B,  C,  D,  E,  F,  G,  H,  I,  J,  K,  L
128Streptomyces coelicolorMutation(s): 1 
Gene Names: SCC61A.04c, SCO2683, ssb1
Find proteins for Q9KYI9 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145))
Explore Q9KYI9 
Go to UniProtKB:  Q9KYI9
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.155 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 150.004α = 90
b = 150.004β = 90
c = 54.7γ = 120
Software Package:
Software NamePurpose
MxCuBEdata collection
EPMRphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-01-16
    Type: Initial release
  • Version 1.1: 2013-04-10
    Changes: Database references