2BIP Dna-Binding Protein date Jan 25, 2005
title Human P53 Core Domain Mutant M133l-H168r-V203a-N239y-R249s- N268d
authors A.C.Joerger, A.R.Fersht
compound source
Molecule: Cellular Tumor Antigen P53
Chain: A
Fragment: Dna-Binding (Core) Domain, Residues 94-312
Synonym: Tumor Suppressor P53, Phosphoprotein P53, Antigen Ny-Co-13;
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 65 2 2
R_factor 0.217 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.403 45.403 331.385 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.8 Å
ligand ZN enzyme
related structures by homologous chain: 1UOL, 2BIQ
Primary referenceStructures of p53 cancer mutants and mechanism of rescue by second-site suppressor mutations., Joerger AC, Ang HC, Veprintsev DB, Blair CM, Fersht AR, J Biol Chem. 2005 Apr 22;280(16):16030-7. Epub 2005 Feb 9. PMID:15703170
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (2bip.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 2BIP
  • CSU: Contacts of Structural Units for 2BIP
  • Likely Quarternary Molecular Structure file(s) for 2BIP
  • Structure Factors (138 Kb)
  • Retrieve 2BIP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BIP from S2C, [Save to disk]
  • Re-refined 2bip structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2BIP 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 2BIP
  • 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 2BIP, from MSDmotif at EBI
  • Fold representative 2bip from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bip_A]
  • SWISS-PROT database: [P04637]
  • Domain organization of [P53_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2BIP with the sequences similar proteins can be viewed for 2BIP's classification [P53_HUMAN] 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 [P53_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 2BIP
  • Community annotation for 2BIP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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