403D Dna date Jun 10, 1998
title 5'-D(Cpgpcp(Hyd)Apapaptptptpgpcpg)-3', 2'-(4- Ethoxyphenyl)-5-(4-Methyl-1-Piperazinyl)-2,5'-Bi-Benzimidaz
authors H.Robinson, Y.G.Gao, C.Bauer, C.Roberts, C.Switzer, A.H.J.Wang
compound source
Molecule: Dna (5'-D(Cpgpcp(Igu)Papaptptptpgpcpg
Chain: A, B
Engineered: 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
25.759 41.084 64.307 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.40 Å
ligand HT1, IGU, MG enzyme
Primary reference2'-Deoxyisoguanosine adopts more than one tautomer to form base pairs with thymidine observed by high-resolution crystal structure analysis., Robinson H, Gao YG, Bauer C, Roberts C, Switzer C, Wang AH, Biochemistry 1998 Aug 4;37(31):10897-905. PMID:9692982
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (18 Kb) [Save to disk]
  • Biological Unit Coordinates (403d.pdb1.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 403D
  • CSU: Contacts of Structural Units for 403D
  • Likely Quarternary Molecular Structure file(s) for 403D
  • Structure Factors (100 Kb)
  • Retrieve 403D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 403D from S2C, [Save to disk]
  • Re-refined 403d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 403D 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 403D
  • 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 403D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [403d_A] [403d_B] [403d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 403D
  • Community annotation for 403D 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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