2ADY Apoptosis Dna date Jul 21, 2005
title Structural Basis Of Dna Recognition By P53 Tetramers (Complex Iv)
authors M.Kitayner, H.Rozenberg, N.Kessler, D.Rabinovich, Z.Shakked
compound source
Molecule: 5'-D(Cpgpgpapcpaptpgptpcpcpg)-3'
Chain: E, F
Synonym: Tumor Suppressor P53, Phosphoprotein P53, Antigen Ny-Co-13;
Engineered: Yes
Synthetic: Yes

Molecule: Cellular Tumor Antigen P53
Chain: A, B
Fragment: Residues 94-293
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet27b
symmetry Space Group: C 1 2 1
R_factor 0.164 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.997 67.903 74.989 90.00 92.97 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand ZN enzyme
Primary referenceStructural basis of DNA recognition by p53 tetramers., Kitayner M, Rozenberg H, Kessler N, Rabinovich D, Shaulov L, Haran TE, Shakked Z, Mol Cell. 2006 Jun 23;22(6):741-53. PMID:16793544
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (2ady.pdb1.gz) 153 Kb
  • LPC: Ligand-Protein Contacts for 2ADY
  • CSU: Contacts of Structural Units for 2ADY
  • Likely Quarternary Molecular Structure file(s) for 2ADY
  • Structure Factors (278 Kb)
  • Retrieve 2ADY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ADY from S2C, [Save to disk]
  • Re-refined 2ady structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ADY 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 2ADY
  • 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 2ADY, from MSDmotif at EBI
  • Fold representative 2ady from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ady_A] [2ady_F] [2ady] [2ady_B] [2ady_E]
  • SWISS-PROT database: [P04637]
  • Belongs to the pore-forming pnc-27 peptide of 32 aas from the p53 tumor suppressor protein (pnc-27) family according to TCDB.
  • Domain organization of [P53_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2ADY with the sequences similar proteins can be viewed for 2ADY'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 2ADY
  • Community annotation for 2ADY 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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