4KVP Apoptosis date May 22, 2013
title Human P53 Core Domain Mutant V157f
authors B.D.Wallentine, Y.Wang, H.Luecke
compound source
Molecule: Cellular Tumor Antigen P53
Chain: A, B, C, D
Fragment: P53 Core Domain
Synonym: Antigen Ny-Co-13, Phosphoprotein P53, Tumor Suppre
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: P53, Tp53
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pse420
symmetry Space Group: P 1 21 1
R_factor 0.174 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.656 70.279 83.559 90.00 90.06 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand ZN enzyme
note 4KVP supersedes 2QXA
Primary referenceStructures of oncogenic, suppressor and rescued p53 core-domain variants: mechanisms of mutant p53 rescue., Wallentine BD, Wang Y, Tretyachenko-Ladokhina V, Tan M, Senear DF, Luecke H, Acta Crystallogr D Biol Crystallogr. 2013 Oct;69(Pt 10):2146-56. doi:, 10.1107/S0907444913020830. Epub 2013 Sep 20. PMID:24100332
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (280 Kb) [Save to disk]
  • Biological Unit Coordinates (4kvp.pdb1.gz) 71 Kb
  • Biological Unit Coordinates (4kvp.pdb2.gz) 70 Kb
  • Biological Unit Coordinates (4kvp.pdb3.gz) 71 Kb
  • Biological Unit Coordinates (4kvp.pdb4.gz) 71 Kb
  • LPC: Ligand-Protein Contacts for 4KVP
  • CSU: Contacts of Structural Units for 4KVP
  • Structure Factors (2354 Kb)
  • Retrieve 4KVP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4KVP from S2C, [Save to disk]
  • Re-refined 4kvp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4KVP 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 4KVP
  • 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 4KVP, from MSDmotif at EBI
  • Fold representative 4kvp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4kvp_D] [4kvp_C] [4kvp_A] [4kvp_B] [4kvp]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 4KVP with the sequences similar proteins can be viewed for 4KVP'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 4KVP
  • Community annotation for 4KVP at PDBWiki (http://pdbwiki.org)

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