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
Gene
Ontology
ChainFunctionProcessComponent
A, B


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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