4RQ5 Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 60 s date
authors Vyas, R., Suo, Z.
compound source
symmetry
R_factor
R_Free 0.26586
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.32
ligand 8OG, ACT, CL, DTP, MG, NA, PPV enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceViewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography., Vyas R, Reed AJ, Tokarsky EJ, Suo Z, J Am Chem Soc. 2015 Apr 9. PMID:25825995
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (4rq5.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 4RQ5
  • CSU: Contacts of Structural Units for 4RQ5
  • Structure Factors (334 Kb)
  • Retrieve 4RQ5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4RQ5 from S2C, [Save to disk]
  • Re-refined 4rq5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4RQ5 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 4RQ5
  • 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 4RQ5, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4rq5_D] [4rq5_P] [4rq5_A] [4rq5] [4rq5_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4RQ5: [HhH1] [POLXc ] by SMART
    • Other resources with information on 4RQ5
  • Community annotation for 4RQ5 at PDBWiki (http://pdbwiki.org)

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