5IYJ Dna date Mar 24, 2016
title Comparison Of X-Ray Crystal Structures Of A Tetradecamer Seq D(Cccgggtacccggg)2 At 1.7 Resolution
authors S.Karthik, A.Thirugnanasambandam, P.K.Mandal, N.Gautham
compound source
Molecule: Dna (5'-D(Cpcpcpgpgpgptpapcpcpcpgpgp
Chain: A, B
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 41 21 2
R_factor 0.191 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.583 41.583 89.906 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
Primary referenceComparison of X-ray crystal structures of a tetradecamer sequence d(CCCGGGTACCCGGG)2 at 1.7 A resolution., Karthik S, Thirugnanasambandam A, Mandal PK, Gautham N, Nucleosides Nucleotides Nucleic Acids. 2017 Apr 7:1-12. doi:, 10.1080/15257770.2017.1287378. PMID:28387634
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (5iyj.pdb1.gz) 24 Kb
  • CSU: Contacts of Structural Units for 5IYJ
  • Structure Factors (159 Kb)
  • Retrieve 5IYJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IYJ from S2C, [Save to disk]
  • Re-refined 5iyj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5IYJ 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 5IYJ
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5iyj_A] [5iyj_B] [5iyj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5IYJ
  • Community annotation for 5IYJ at PDBWiki (http://pdbwiki.org)

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