5DLF Crystal Structure of Human DNA Polymerase Eta Inserting dATP Opposite O4-Methylhymidine date
authors Patra, A., OFlaherty, D.K., Egli, M.
compound source
symmetry
R_factor
R_Free 0.21707
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.97
ligand 5DB, CA, DTP, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceLesion Orientation of O(4)-Alkylthymidine Influences Replication by Human DNA Polymerase eta., O'Flaherty DK, Patra A, Su Y, Guengerich FP, Egli M, Wilds CJ, Chem Sci. 2016 Aug 1;7(8):4896-4904. doi: 10.1039/C6SC00666C. Epub 2016 Apr 26. PMID:27574558
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (5dlf.pdb1.gz) 89 Kb
  • LPC: Ligand-Protein Contacts for 5DLF
  • CSU: Contacts of Structural Units for 5DLF
  • Structure Factors (902 Kb)
  • Retrieve 5DLF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DLF from S2C, [Save to disk]
  • Re-refined 5dlf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DLF 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 5DLF
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dlf] [5dlf_P] [5dlf_T] [5dlf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5DLF
  • Community annotation for 5DLF at PDBWiki (http://pdbwiki.org)

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