313D Dna date Feb 04, 1997
title Z-Dna Hexamer With 5' Overhangs That Form A Reverse Hoogsteen Base Pair
authors B.H.M.Mooers, B.F.Eichman, P.S.Ho
compound source
Molecule: Dna (5'-D(Gp(5cm)Pgpcpgpcpg)-3')
Chain: A, B
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.207 R_Free 0.287
length a length b length c angle alpha angle beta angle gamma
20.340 29.620 51.930 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.68 Å
ligand 5CM, MG, NCO enzyme
Primary referenceThe structures and relative stabilities of d(G x G) reverse Hoogsteen, d(G x T) reverse wobble, and d(G x C) reverse Watson-Crick base-pairs in DNA crystals., Mooers BH, Eichman BF, Ho PS, J Mol Biol 1997 Jun 27;269(5):796-810. PMID:9223642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (11 Kb) [Save to disk]
  • Biological Unit Coordinates (313d.pdb1.gz) 8 Kb
  • LPC: Ligand-Protein Contacts for 313D
  • CSU: Contacts of Structural Units for 313D
  • Likely Quarternary Molecular Structure file(s) for 313D
  • Structure Factors (35 Kb)
  • Retrieve 313D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 313D from S2C, [Save to disk]
  • Re-refined 313d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 313D 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 313D
  • 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 313D, from MSDmotif at EBI
  • Fold representative 313d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [313d] [313d_B] [313d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 313D
  • Community annotation for 313D 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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