3AAF Dna Binding Protein Dna date Nov 16, 2009
title Structure Of Wrn Rqc Domain Bound To Double-Stranded Dna
authors K.Kitano, T.Hakoshima
compound source
Molecule: Werner Syndrome Atp-Dependent Helicase
Chain: A, B
Fragment: Recq C-Terminal (Rqc) Domain
Synonym: Werner Syndrome Protein, Wrn
Ec: 3.6.1.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-5x-1

Molecule: Dna (5'-D(Apcpcpcptpapaptptpapgpgpgp
Chain: C, D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 43 2 2
R_factor 0.212 R_Free 0.244
length a length b length c angle alpha angle beta angle gamma
84.077 84.077 145.291 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand ACT enzyme Hydrolase E.C.3.6.1 BRENDA
A, B

Primary referenceStructural basis for DNA strand separation by the unconventional winged-helix domain of RecQ helicase WRN., Kitano K, Kim SY, Hakoshima T, Structure. 2010 Feb 10;18(2):177-87. PMID:20159463
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk]
  • Biological Unit Coordinates (3aaf.pdb1.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 3AAF
  • CSU: Contacts of Structural Units for 3AAF
  • Structure Factors (299 Kb)
  • Retrieve 3AAF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AAF from S2C, [Save to disk]
  • Re-refined 3aaf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3AAF 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 3AAF
  • 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 3AAF, from MSDmotif at EBI
  • Fold representative 3aaf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3aaf_B] [3aaf_C] [3aaf_D] [3aaf_A] [3aaf]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3AAF: [RQC ] by SMART
  • Other resources with information on 3AAF
  • Community annotation for 3AAF 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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