1VAQ Dna date Feb 19, 2004
title Crystal Structure Of The Mg2+-(Chromomycin A3)2-D(Ttggccaa)2 Reveals Ggcc Binding Specificity Of The Drug Dimer Chelated Ion
authors M.H.Hou, H.Robinson, Y.G.Gao, A.H.J.Wang
compound source
Molecule: 5'-D(Tptpgpgpcpcpapa)-3'
Chain: A, B, C, D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: The Synthetic Dna Oligonucleotides Were Puri Gel Electrophoresis.
symmetry Space Group: P 65 2 2
R_factor 0.235 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.230 42.230 246.110 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand 1GL, ARI, CDR, CPH, ERI, MG enzyme
Primary referenceCrystal structure of the [Mg2+-(chromomycin A3)2]-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by a metal ion., Hou MH, Robinson H, Gao YG, Wang AH, Nucleic Acids Res 2004 Apr 23;32(7):2214-22. Print 2004. PMID:15107489
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (1vaq.pdb1.gz) 13 Kb
  • Biological Unit Coordinates (1vaq.pdb2.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 1VAQ
  • CSU: Contacts of Structural Units for 1VAQ
  • Likely Quarternary Molecular Structure file(s) for 1VAQ
  • Structure Factors (55 Kb)
  • Retrieve 1VAQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VAQ from S2C, [Save to disk]
  • Re-refined 1vaq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1VAQ 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 1VAQ
  • 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 1VAQ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vaq] [1vaq_B] [1vaq_C] [1vaq_A] [1vaq_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 1VAQ
  • Community annotation for 1VAQ 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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