1YCW Dna date Dec 23, 2004
title Clustered Abasic Lesions In Dna: Nmr Solution Structures Of Bistranded-1 Abasic Lesion
authors R.D.Hazel, C.De Los Santos
compound source
Molecule: 5'-D(Cpgpcpaptpgp(3dr)Pgptpapcpgpc)-
Chain: A
Engineered: Yes
 Synthetic: Yes
Other_details: Randomly Designed Sequence Containing Stable Sites (3dr);

Molecule: 5'-D(Gpcpgptpapcpcp(3dr)Paptpgpcpg)-
Chain: B
Engineered: Yes
Synthetic: Yes
Other_details: Randomly Designed Sequence Containing Stable Sites (3dr)
methodSolution NMR
ligand 3DR enzyme
Primary referenceNMR solution structures of bistranded abasic site lesions in DNA., Hazel RD, Tian K, de Los Santos C, Biochemistry. 2008 Nov 18;47(46):11909-19. Epub 2008 Oct 25. PMID:18950195
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (1ycw.pdb1.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 1YCW
  • CSU: Contacts of Structural Units for 1YCW
  • Original NMR restraints for 1YCW from PDB
  • Retrieve 1YCW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YCW from S2C, [Save to disk]
    • View 1YCW 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 1YCW
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1YCW, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ycw_A] [1ycw_B] [1ycw]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1YCW
  • Community annotation for 1YCW 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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