4NYI Approach for Targeting Ras with Small Molecules that Activate SOS-Mediated Nucleotide Exchange date
authors Burns, M.C., Sun, Q., Phan, J., Fesik, S.W.
compound source
symmetry
R_factor
R_Free 0.2083
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.96
ligand 2PX, GNP, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
Q, R


S


Primary referenceApproach for targeting Ras with small molecules that activate SOS-mediated nucleotide exchange., Burns MC, Sun Q, Daniels RN, Camper D, Kennedy JP, Phan J, Olejniczak ET, Lee T, Waterson AG, Rossanese OW, Fesik SW, Proc Natl Acad Sci U S A. 2014 Mar 4;111(9):3401-6. doi: 10.1073/pnas.1315798111., Epub 2014 Feb 18. PMID:24550516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk]
  • Biological Unit Coordinates (4nyi.pdb1.gz) 136 Kb
  • LPC: Ligand-Protein Contacts for 4NYI
  • CSU: Contacts of Structural Units for 4NYI
  • Structure Factors (180 Kb)
  • Retrieve 4NYI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4NYI from S2C, [Save to disk]
  • Re-refined 4nyi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4NYI 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 4NYI
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4NYI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4nyi_S] [4nyi_Q] [4nyi_R] [4nyi]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4NYI: [RAS] [RasGEF] [RasGEFN ] by SMART
  • Other resources with information on 4NYI
  • Community annotation for 4NYI at PDBWiki (http://pdbwiki.org)

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