3EIJ Antitumor Protein date Sep 16, 2008
title Crystal Structure Of Pdcd4
authors P.G.Loh
compound source
Molecule: Programmed Cell Death Protein 4
Chain: A, B
Fragment: Unp Residues 157-469
Synonym: Nuclear Antigen H731-Like, Neoplastic Transformati Inhibitor Protein, Protein 19715a;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21star
Expression_system_vector: Plasmid
Expression_system_plasmid: Pgex-6p-1
symmetry Space Group: P 31 2 1
R_factor 0.235 R_Free 0.277
crystal
cell
length a length b length c angle alpha angle beta angle gamma
170.325 170.325 66.919 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for translational inhibition by the tumour suppressor Pdcd4., Loh PG, Yang HS, Walsh MA, Wang Q, Wang X, Cheng Z, Liu D, Song H, EMBO J. 2009 Feb 4;28(3):274-85. Epub 2009 Jan 15. PMID:19153607
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (3eij.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (3eij.pdb2.gz) 44 Kb
  • CSU: Contacts of Structural Units for 3EIJ
  • Likely Quarternary Molecular Structure file(s) for 3EIJ
  • Structure Factors (1330 Kb)
  • Retrieve 3EIJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EIJ from S2C, [Save to disk]
  • Re-refined 3eij structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EIJ 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 3EIJ
  • 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 3EIJ, from MSDmotif at EBI
  • Fold representative 3eij from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3eij] [3eij_A] [3eij_B]
  • SWISS-PROT database: [Q53EL6]
  • Domain organization of [PDCD4_HUMAN] by SWISSPFAM
  • Domain found in 3EIJ: [MA3 ] by SMART
  • Other resources with information on 3EIJ
  • Community annotation for 3EIJ 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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