4FO6 Crystal structure of the pre-catalytic ternary complex of polymerase lambda with a dATP analog opposite a templating T and an rCMP at the primer terminus. date 2012-06-20
authors Gosavi, R.A., Moon, A.F., Kunkel, T.A., Pedersen, L.C., Bebenek, K.
compound source
symmetry
R_factor
R_Free 0.2306
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.01
ligand CL, F2A, MG, MN, NA enzyme
note 4FO6 supersedes 3UQ1
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe catalytic cycle for ribonucleotide incorporation by human DNA Pol lambda, Gosavi RA, Moon AF, Kunkel TA, Pedersen LC, Bebenek K, Nucleic Acids Res. 2012 May 14. PMID:22584622
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (4fo6.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 4FO6
  • CSU: Contacts of Structural Units for 4FO6
  • Structure Factors (490 Kb)
  • Retrieve 4FO6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FO6 from S2C, [Save to disk]
  • Re-refined 4fo6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4FO6 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 4FO6
  • 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 4FO6, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fo6_P] [4fo6_A] [4fo6] [4fo6_D] [4fo6_I] [4fo6_H] [4fo6_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4FO6: [HhH1] [POLXc ] by SMART
    • Other resources with information on 4FO6
  • Community annotation for 4FO6 at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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