1W36

RecBCD:DNA complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.242 
  • R-Value Observed: 0.242 

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This is version 1.2 of the entry. See complete history. 


Literature

Crystal Structure of Recbcd Enzyme Reveals a Machine for Processing DNA Breaks

Singleton, M.R., Dillingham, M.S., Gaudier, M., Kowalczykowski, S.C., Wigley, D.B.

(2004) Nature 432: 187

  • DOI: 10.1038/nature02988
  • Primary Citation of Related Structures:  
    1W36

  • PubMed Abstract: 

    • RecBCD is a multi-functional enzyme complex that processes DNA ends resulting from a double-strand break. RecBCD is a bipolar helicase that splits the duplex into its component strands and digests them until encountering a recombinational hotspot (Chi site) ...

    RecBCD is a multi-functional enzyme complex that processes DNA ends resulting from a double-strand break. RecBCD is a bipolar helicase that splits the duplex into its component strands and digests them until encountering a recombinational hotspot (Chi site). The nuclease activity is then attenuated and RecBCD loads RecA onto the 3' tail of the DNA. Here we present the crystal structure of RecBCD bound to a DNA substrate. In this initiation complex, the DNA duplex has been split across the RecC subunit to create a fork with the separated strands each heading towards different helicase motor subunits. The strands pass along tunnels within the complex, both emerging adjacent to the nuclease domain of RecB. Passage of the 3' tail through one of these tunnels provides a mechanism for the recognition of a Chi sequence by RecC within the context of double-stranded DNA. Gating of this tunnel suggests how nuclease activity might be regulated.

    Organizational Affiliation: 

    Cancer Research UK Clare Hall Laboratories, The London Research Institute, Blanche Lane, South Mimms, Potters Bar, Herts. EN6 3LD, UK.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
EXODEOXYRIBONUCLEASE V BETA CHAINA [auth B],
D [auth E]		1,180Escherichia coliMutation(s): 0 
EC: 3.1.11.5
UniProt
Find proteins for P08394 (Escherichia coli (strain K12))
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UniProt GroupP08394
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
EXODEOXYRIBONUCLEASE V GAMMA CHAINB [auth C],
E [auth F]		1,122Escherichia coliMutation(s): 0 
EC: 3.1.11.5
UniProt
Find proteins for P07648 (Escherichia coli (strain K12))
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UniProt GroupP07648
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
EXODEOXYRIBONUCLEASE V ALPHA CHAINC [auth D],
F [auth G]		608Escherichia coliMutation(s): 0 
EC: 3.1.11.5
UniProt
Find proteins for P04993 (Escherichia coli (strain K12))
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Go to UniProtKB:  P04993
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UniProt GroupP04993
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Entity ID: 4
MoleculeChainsLengthOrganismImage
DNA HAIRPING [auth Y],
H [auth Z]		43N/A
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA
Download Ideal Coordinates CCD File 
I [auth B],
J [auth E]		CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.242 
  • R-Value Observed: 0.242 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 132.602α = 90
b = 187.234β = 90
c = 335.369γ = 90
Software Package:
Software NamePurpose
CNSrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-11-04
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance