4R65 Ternary complex crystal structure of R258A mutant of DNA polymerase Beta date
authors Batra, V.K., Beard, W.A., Wilson, S.H.
compound source
symmetry
R_factor
R_Free 0.2221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.95
ligand CL, DUP, MG, NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSubstrate-Induced DNA Polymerase beta Activation., Beard WA, Shock DD, Batra VK, Prasad R, Wilson SH, J Biol Chem. 2014 Sep 26. pii: jbc.M114.607432. PMID:25261471
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (4r65.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 4R65
  • CSU: Contacts of Structural Units for 4R65
  • Structure Factors (491 Kb)
  • Retrieve 4R65 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4R65 from S2C, [Save to disk]
  • Re-refined 4r65 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4R65 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 4R65
  • 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 4R65, from MSDmotif at EBI
  • Fold representative 4r65 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4r65_T] [4r65_P] [4r65_D] [4r65_A] [4r65]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4R65: [HhH1] [POLXc ] by SMART
  • Other resources with information on 4R65
  • Community annotation for 4R65 at PDBWiki (http://pdbwiki.org)

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