5J0Y Binary complex crystal structure of DNA polymerase Beta with T:T mismatch at the primer terminus date
authors Batra, V.K., Wilson, S.H.
compound source
symmetry
R_factor
R_Free 0.2448
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
ligand NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of DNA Polymerase Mispaired DNA Termini Transitioning to Pre-catalytic Complexes Support an Induced-Fit Fidelity Mechanism., Batra VK, Beard WA, Pedersen LC, Wilson SH, Structure. 2016 Sep 13. pii: S0969-2126(16)30238-6. doi:, 10.1016/j.str.2016.08.006. PMID:27642161
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (5j0y.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 5J0Y
  • CSU: Contacts of Structural Units for 5J0Y
  • Structure Factors (400 Kb)
  • Retrieve 5J0Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5J0Y from S2C, [Save to disk]
  • Re-refined 5j0y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5J0Y 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 5J0Y
  • 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
  • Fold representative 5j0y from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5j0y_P] [5j0y_A] [5j0y] [5j0y_D] [5j0y_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5J0Y: [HhH1] [POLXc ] by SMART
  • Other resources with information on 5J0Y
  • Community annotation for 5J0Y at PDBWiki (http://pdbwiki.org)

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