1W36 Recombination date Jul 13, 2004
title Recbcd:Dna Complex
authors M.R.Singleton, M.S.Dillingham, M.Gaudier, S.C Kowalczykowski, D.B.Wigley
compound source
Molecule: Exodeoxyribonuclease V Beta Chain
Chain: B, E
Synonym: Recb
Ec: 3.1.11.5
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Exodeoxyribonuclease V Gamma Chain
Chain: C, F
Synonym: Recc
Ec: 3.1.11.5
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Exodeoxyribonuclease V Alpha Chain
Chain: D, G
Synonym: Recd
Ec: 3.1.11.5
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Hairpin
Chain: Y, Z
Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.242 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
132.602 187.234 335.369 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.1 Å
ligand CA enzyme Hydrolase E.C.3.1.11.5 BRENDA
note 1W36 (Molecule of the Month:pdb172)
Gene
Ontology
ChainFunctionProcessComponent
D, G
  • DNA helicase activity
  • nuclease activity
  • exonuclease activity
  • single-stranded DNA-dependen...


    • E, B
  • DNA helicase activity
  • nuclease activity
  • exonuclease activity
  • 3'-5' DNA helicase activity


    • F, C
  • DNA helicase activity
  • nuclease activity
  • exonuclease activity


    • Primary referenceCrystal structure of RecBCD enzyme reveals a machine for processing DNA breaks., Singleton MR, Dillingham MS, Gaudier M, Kowalczykowski SC, Wigley DB, Nature. 2004 Nov 11;432(7014):187-93. PMID:15538360
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (944 Kb) [Save to disk]
  • Biological Unit Coordinates (1w36.pdb1.gz) 474 Kb
  • Biological Unit Coordinates (1w36.pdb2.gz) 466 Kb
  • LPC: Ligand-Protein Contacts for 1W36
  • CSU: Contacts of Structural Units for 1W36
  • Likely Quarternary Molecular Structure file(s) for 1W36
  • Structure Factors (1210 Kb)
  • Retrieve 1W36 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W36 from S2C, [Save to disk]
  • Re-refined 1w36 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1W36 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 1W36
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1W36, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1w36b1, region B:1-485 [Jmol] [rasmolscript] [script source]
        - Domain d1w36b2, region B:486-880 [Jmol] [rasmolscript] [script source]
        - Domain d1w36b3, region B:899-1174 [Jmol] [rasmolscript] [script source]
        - Domain d1w36c1, region C:1-347 [Jmol] [rasmolscript] [script source]
        - Domain d1w36c2, region C:348-817 [Jmol] [rasmolscript] [script source]
        - Domain d1w36c3, region C:818-1121 [Jmol] [rasmolscript] [script source]
        - Domain d1w36d1, region D:2-360 [Jmol] [rasmolscript] [script source]
        - Domain d1w36d2, region D:361-606 [Jmol] [rasmolscript] [script source]
        - Domain d1w36e1, region E:1-485 [Jmol] [rasmolscript] [script source]
        - Domain d1w36e2, region E:486-880 [Jmol] [rasmolscript] [script source]
        - Domain d1w36e3, region E:899-1174 [Jmol] [rasmolscript] [script source]
        - Domain d1w36f1, region F:1-347 [Jmol] [rasmolscript] [script source]
        - Domain d1w36f2, region F:348-817 [Jmol] [rasmolscript] [script source]
        - Domain d1w36f3, region F:818-1121 [Jmol] [rasmolscript] [script source]
        - Domain d1w36g1, region G:2-360 [Jmol] [rasmolscript] [script source]
        - Domain d1w36g2, region G:361-606 [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w36_C] [1w36_B] [1w36_F] [1w36_G] [1w36_Y] [1w36_Z] [1w36] [1w36_D] [1w36_E]
  • SWISS-PROT database: [P04993] [P08394] [P07648]
  • Domain organization of [EX5A_ECOLI] [EX5B_ECOLI] [EX5C_ECOLI] by SWISSPFAM
  • Domain found in 1W36: [AAA ] by SMART
    • Other resources with information on 1W36
  • Community annotation for 1W36 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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