2V4R Non-productive complex of the Y-family DNA polymerase Dpo4 with dGTP skipping the M1dG adduct to pair with the next template cytosine date
authors Eoff, R.L., Stafford, J.B., Szekely, J., Rizzo, C.J., Egli, M., Guengerich, F.P., Marnett, L.J.
compound source
R_Free 0.273
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
ligand CA, DGT, M1G enzyme

Primary referenceStructural and Functional Analysis of Sulfolobus solfataricus Y-family DNA polymerase Dpo4-catalyzed Bypass of the Malondialdehyde-deoxyguanosine Adduct., Eoff RL, Stafford JB, Szekely J, Rizzo CJ, Egli M, Guengerich FP, Marnett LJ, Biochemistry. 2009 Jun 4. PMID:19492857
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk]
  • Biological Unit Coordinates (2v4r.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 2V4R
  • CSU: Contacts of Structural Units for 2V4R
  • Likely Quarternary Molecular Structure file(s) for 2V4R
  • Structure Factors (94 Kb)
  • Retrieve 2V4R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2V4R from S2C, [Save to disk]
  • Re-refined 2v4r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2V4R 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 2V4R
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2V4R, from MSDmotif at EBI
  • Fold representative 2v4r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2v4r_T] [2v4r_A] [2v4r_P] [2v4r]
  • SWISS-PROT database: [Q97W02]
  • Domain organization of [DPO42_SULSO] by SWISSPFAM
  • Other resources with information on 2V4R
  • Community annotation for 2V4R 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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