5IYE 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
R_factor 0.188 R_Free 0.220
length a length b length c angle alpha angle beta angle gamma
29.283 29.283 88.213 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.69 Å
ligand ZN enzyme
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] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (5iye.pdb1.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 5IYE
  • CSU: Contacts of Structural Units for 5IYE
  • Structure Factors (189 Kb)
  • Retrieve 5IYE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IYE from S2C, [Save to disk]
  • Re-refined 5iye structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5IYE 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 5IYE
  • 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: [5iye_A] [5iye] [5iye_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5IYE
  • Community annotation for 5IYE at PDBWiki (http://pdbwiki.org)

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