4QWD TERNARY CRYSTAL STRUCTURES of A Y-FAMILY DNA POLYMERASE DPO4 FROM SULFOLOBUS SOLFATARICUS IN COMPLEX WITH DNA AND (-)3TC-PPNP date
authors Gaur, V., Suo, Z.
compound source
symmetry
R_factor
R_Free 0.262
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.05
ligand 3TT, CA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase., Gaur V, Vyas R, Fowler JD, Efthimiopoulos G, Feng JY, Suo Z, Nucleic Acids Res. 2014 Aug 7. pii: gku709. PMID:25104018
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (152 Kb) [Save to disk]
  • Biological Unit Coordinates (4qwd.pdb1.gz) 145 Kb
  • LPC: Ligand-Protein Contacts for 4QWD
  • CSU: Contacts of Structural Units for 4QWD
  • Structure Factors (222 Kb)
  • Retrieve 4QWD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4QWD from S2C, [Save to disk]
  • Re-refined 4qwd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4QWD 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 4QWD
  • 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 4QWD, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4qwd] [4qwd_C] [4qwd_D] [4qwd_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4QWD
  • Community annotation for 4QWD at PDBWiki (http://pdbwiki.org)

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