4O9M Human DNA polymerase beta complexed with adenylated tetrahydrofuran (abasic site) containing DNA date 2014-01-02
authors Caglayan, M., Batra, V.K., Sassa, A., Prasad, R., Wilson, S.H.
compound source
symmetry
R_factor
R_Free 0.2610
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.29
ligand 2RW, NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRole of polymerase beta in complementing aprataxin deficiency during abasic-site base excision repair., Caglayan M, Batra VK, Sassa A, Prasad R, Wilson SH, Nat Struct Mol Biol. 2014 May;21(5):497-9. doi: 10.1038/nsmb.2818. Epub 2014 Apr , 28. PMID:24777061
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (4o9m.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 4O9M
  • CSU: Contacts of Structural Units for 4O9M
  • Structure Factors (179 Kb)
  • Retrieve 4O9M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4O9M from S2C, [Save to disk]
  • Re-refined 4o9m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4O9M 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 4O9M
  • 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 4O9M, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4o9m] [4o9m_B] [4o9m_A] [4o9m_C] [4o9m_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4O9M: [HhH1] [POLXc ] by SMART
    • Other resources with information on 4O9M
  • Community annotation for 4O9M at PDBWiki (http://pdbwiki.org)

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