2FII Dna date Dec 29, 2005
title Crystal Structure Analysis Of The B-Dna Dodecamer Cgcgaat-Au With Incorporated Arabino-Uridin (Au)
authors M.Egli, F.Li
compound source
Molecule: 5'-D(Cpgpcpgpapaptp(Uar)Pcpgpcpg)-3'
Chain: A, B
Engineered: Yes
Mutation: Yes
 Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
25.699 39.915 65.564 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.24 Å
ligand MG, UAR enzyme
Primary reference2'-Fluoroarabino- and arabinonucleic acid show different conformations, resulting in deviating RNA affinities and processing of their heteroduplexes with RNA by RNase H., Li F, Sarkhel S, Wilds CJ, Wawrzak Z, Prakash TP, Manoharan M, Egli M, Biochemistry. 2006 Apr 4;45(13):4141-52. PMID:16566588
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk]
  • Biological Unit Coordinates (2fii.pdb1.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 2FII
  • CSU: Contacts of Structural Units for 2FII
  • Likely Quarternary Molecular Structure file(s) for 2FII
  • Structure Factors (205 Kb)
  • Retrieve 2FII in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FII from S2C, [Save to disk]
  • Re-refined 2fii structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2FII 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 2FII
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2FII, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2fii_B] [2fii] [2fii_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 2FII
  • Community annotation for 2FII 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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