3DSC Hydrolase Dna date Jul 11, 2008
title Crystal Structure Of P. Furiosus Mre11 Dna Synaptic Complex
authors R.S.Williams, G.Moncalian, D.S.Shin, J.A.Tainer
compound source
Molecule: Dna Double-Strand Break Repair Protein Mre11
Chain: A
Fragment: Pfmre11 Nuclease Domain
Synonym: Pfmre11
Engineered: Yes
Organism_scientific: Pyrococcus Furiosus
Organism_taxid: 2261
Gene: Mre11, Pf1166
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- D(Pdcpdapdcpdapdapdgpdcpdtpdtpdtpdtpdgpdcpdtp Tpdgpdapdc)-3');
Chain: B
Fragment: 3' Overhang Dna Hairpin
Engineered: Yes

Synthetic: Yes
symmetry Space Group: C 2 2 2
R_factor 0.228 R_Free 0.278
length a length b length c angle alpha angle beta angle gamma
98.477 106.071 76.667 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å

Primary referenceMre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair., Williams RS, Moncalian G, Williams JS, Yamada Y, Limbo O, Shin DS, Groocock LM, Cahill D, Hitomi C, Guenther G, Moiani D, Carney JP, Russell P, Tainer JA, Cell. 2008 Oct 3;135(1):97-109. PMID:18854158
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3dsc.pdb1.gz) 122 Kb
  • CSU: Contacts of Structural Units for 3DSC
  • Likely Quarternary Molecular Structure file(s) for 3DSC
  • Structure Factors (148 Kb)
  • Retrieve 3DSC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DSC from S2C, [Save to disk]
  • Re-refined 3dsc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DSC 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 3DSC
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3DSC, from MSDmotif at EBI
  • Fold representative 3dsc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dsc] [3dsc_A] [3dsc_B]
  • SWISS-PROT database: [Q8U1N9]
  • Domain organization of [MRE11_PYRFU] by SWISSPFAM
  • Other resources with information on 3DSC
  • Community annotation for 3DSC 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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