4K8X Binary complex of 9N DNA polymerase in the replicative state date 2013-04-19
authors Betz, K., Diederichs, K., Marx, A.
compound source
symmetry
R_factor
R_Free 0.2383
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.28
ligand 5CY, CL, DOC, EDO, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • DNA-directed DNA polymerase ...


  • Primary referenceStructures of KOD and 9 degrees N DNA Polymerases Complexed with Primer Template Duplex., Bergen K, Betz K, Welte W, Diederichs K, Marx A, Chembiochem. 2013 Jun 17;14(9):1058-62. doi: 10.1002/cbic.201300175. Epub 2013, Jun 3. PMID:23733496
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (295 Kb) [Save to disk]
  • Biological Unit Coordinates (4k8x.pdb1.gz) 288 Kb
  • LPC: Ligand-Protein Contacts for 4K8X
  • CSU: Contacts of Structural Units for 4K8X
  • Structure Factors (541 Kb)
  • Retrieve 4K8X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4K8X from S2C, [Save to disk]
  • Re-refined 4k8x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4K8X 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 4K8X
  • 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 4K8X, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4k8x_A] [4k8x] [4k8x_P] [4k8x_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4K8X: [POLBc ] by SMART
  • Other resources with information on 4K8X
  • Community annotation for 4K8X at PDBWiki (http://pdbwiki.org)

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