1Z6T Apoptosis date Mar 23, 2005
title Structure Of The Apoptotic Protease-Activating Factor 1 Bound To Adp
authors S.J.Riedl, W.Li, Y.Chao, R.Schwarzenbacher, Y.Shi
compound source
Molecule: Apoptotic Protease Activating Factor 1
Chain: A, B, C, D
Fragment: Apaf-1, Residues 1-591
Synonym: Apaf-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-29b
symmetry Space Group: P 1
R_factor 0.189 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.955 92.883 94.988 62.96 89.99 90.05
method X-Ray Diffractionresolution 2.21 Å
ligand ADP enzyme
note 1Z6T (Molecule of the Month:pdb177)
related structures by homologous chain: 2YGS, 3YGS
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure of the apoptotic protease-activating factor 1 bound to ADP., Riedl SJ, Li W, Chao Y, Schwarzenbacher R, Shi Y, Nature 2005 Apr 14;434(7035):926-33. PMID:15829969
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (401 Kb) [Save to disk]
  • Biological Unit Coordinates (1z6t.pdb1.gz) 102 Kb
  • Biological Unit Coordinates (1z6t.pdb2.gz) 103 Kb
  • Biological Unit Coordinates (1z6t.pdb3.gz) 103 Kb
  • Biological Unit Coordinates (1z6t.pdb4.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 1Z6T
  • CSU: Contacts of Structural Units for 1Z6T
  • Likely Quarternary Molecular Structure file(s) for 1Z6T
  • Retrieve 1Z6T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Z6T from S2C, [Save to disk]
  • View 1Z6T 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 1Z6T
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1Z6T, from MSDmotif at EBI
  • Fold representative 1z6t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1z6t_A] [1z6t_D] [1z6t_C] [1z6t_B] [1z6t]
  • SWISS-PROT database: [O14727]
  • Domain organization of [APAF_HUMAN] by SWISSPFAM
  • Other resources with information on 1Z6T
  • Community annotation for 1Z6T 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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