4AGO Cell Cycle date Jan 30, 2012
title Structure Of The P53 Core Domain Mutant Y220c Bound To The Stabilizing Small Molecule Phikan5174
authors A.C.Joerger, R.Wilcken, A.R.Fersht, F.M.Boeckler
compound source
Molecule: Cellular Tumor Antigen P53
Chain: A, B
Fragment: Dna-Binding Domain, Residues 94-312
Synonym: Antigen Ny-Co-13, Phosphoprotein P53, Tumor Suppre P53, P53;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.1948 R_Free 0.2168
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.050 71.130 105.150 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand P74, ZN enzyme
Primary referenceHalogen-Enriched Fragment Libraries as Leads for Drug Rescue of Mutant p53., Wilcken R, Liu X, Zimmermann MO, Rutherford TJ, Fersht AR, Joerger AC, Boeckler FM, J Am Chem Soc. 2012 Apr 18;134(15):6810-8. Epub 2012 Apr 5. PMID:22439615
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (4ago.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (4ago.pdb2.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 4AGO
  • CSU: Contacts of Structural Units for 4AGO
  • Structure Factors (4401 Kb)
  • Retrieve 4AGO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4AGO from S2C, [Save to disk]
  • Re-refined 4ago structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4AGO 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 4AGO
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4AGO, from MSDmotif at EBI
  • Fold representative 4ago from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ago] [4ago_B] [4ago_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 4AGO with the sequences similar proteins can be viewed for 4AGO's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 4AGO
  • Community annotation for 4AGO at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science