2F8W Dna date Dec 04, 2005
title Crystal Structure Of D(Cacgtg)2
authors N.Narayana, N.Shamala, K.N.Ganesh, M.A.Viswamitra
compound source
Molecule: 5'-D(Cpapcpgptpg)-3'
Chain: A, B
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Oligonucleotide
symmetry Space Group: P 21 21 21
R_factor 0.180 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
18.420 30.740 43.180 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.20 Å
ligand 13D, SPM enzyme
Primary referenceInteraction between the Z-Type DNA Duplex and 1,3-Propanediamine: Crystal Structure of d(CACGTG)(2) at 1.2 A Resolution(,)., Narayana N, Shamala N, Ganesh KN, Viswamitra MA, Biochemistry. 2006 Jan 31;45(4):1200-1211. PMID:16430216
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (11 Kb) [Save to disk]
  • Biological Unit Coordinates (2f8w.pdb1.gz) 8 Kb
  • LPC: Ligand-Protein Contacts for 2F8W
  • CSU: Contacts of Structural Units for 2F8W
  • Likely Quarternary Molecular Structure file(s) for 2F8W
  • Structure Factors (48 Kb)
  • Retrieve 2F8W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2F8W from S2C, [Save to disk]
  • Re-refined 2f8w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2F8W 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 2F8W
  • 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 2F8W, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2f8w_B] [2f8w] [2f8w_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2F8W
  • Community annotation for 2F8W 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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