3SHF Apoptosis date Jun 16, 2011
title Crystal Structure Of The R265s Mutant Of Full-Length Murine
authors S.Eschenburg, T.F.Reubold
compound source
Molecule: Apoptotic Peptidase Activating Factor 1
Chain: A
Synonym: Apaf-1
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Cell_line: Sf21
Gene: Apaf1
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf21
symmetry Space Group: P 21 21 21
R_factor 0.230 R_Free 0.305
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.880 111.820 244.270 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.55 Å
ligand ADP, GBL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of full-length apaf-1: how the death signal is relayed in the mitochondrial pathway of apoptosis., Reubold TF, Wohlgemuth S, Eschenburg S, Structure. 2011 Aug 10;19(8):1074-83. PMID:21827944
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (188 Kb) [Save to disk]
  • Biological Unit Coordinates (3shf.pdb1.gz) 182 Kb
  • LPC: Ligand-Protein Contacts for 3SHF
  • CSU: Contacts of Structural Units for 3SHF
  • Structure Factors (1622 Kb)
  • Retrieve 3SHF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3SHF from S2C, [Save to disk]
  • Re-refined 3shf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3SHF 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 3SHF
  • 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
  • 3D motif for 3SHF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3shf] [3shf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3SHF: [CARD] [WD40 ] by SMART
  • Other resources with information on 3SHF
  • Community annotation for 3SHF at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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