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 Diffraction	resolution	2.50 Å
ligand	ZN	enzyme
Primary reference	Structural 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 (299 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_B] [2ady_E] [2ady_F] SWISS-PROT database: [P04637] 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)

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