4GDF A Crystal Structure of SV40 Large T Antigen date
authors Chang, Y.P., Xu, M., Chen, X.S.
compound source
symmetry
R_factor
R_Free 0.2549
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.80
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B


Primary referenceMechanism of Origin DNA Recognition and Assembly of an Initiator-Helicase Complex by SV40 Large Tumor Antigen., Chang YP, Xu M, Machado AC, Yu XJ, Rohs R, Chen XS, Cell Rep. 2013 Mar 27. pii: S2211-1247(13)00109-5. doi:, 10.1016/j.celrep.2013.03.002. PMID:23545501
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (378 Kb) [Save to disk]
  • Biological Unit Coordinates (4gdf.pdb1.gz) 188 Kb
  • Biological Unit Coordinates (4gdf.pdb2.gz) 189 Kb
  • LPC: Ligand-Protein Contacts for 4GDF
  • CSU: Contacts of Structural Units for 4GDF
  • Structure Factors (794 Kb)
  • Retrieve 4GDF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4GDF from S2C, [Save to disk]
  • Re-refined 4gdf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4GDF 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 4GDF
  • 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 4GDF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4gdf_F] [4gdf_D] [4gdf_B] [4gdf_H] [4gdf] [4gdf_C] [4gdf_G] [4gdf_A] [4gdf_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4GDF
  • Community annotation for 4GDF at PDBWiki (http://pdbwiki.org)

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