5WVC Apoptosis date Dec 24, 2016
title Structure Of The Card-Card Disk
authors S.C.Lin, Y.C.Lo, T.W.Su
compound source
Molecule: Apoptotic Protease-Activating Factor 1
Chain: C, A, E
Fragment: Unp Residues 1-95
Synonym: Apaf-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apaf1, Kiaa0413
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Caspase
Chain: D, B, F
Fragment: Unp Residues 1-128
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 61
R_factor 0.197 R_Free 0.228
length a length b length c angle alpha angle beta angle gamma
190.110 190.110 68.828 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.99 Å
ligand CSO, IOD enzyme
A, C, E

F, D, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (212 Kb) [Save to disk]
  • Biological Unit Coordinates (5wvc.pdb1.gz) 206 Kb
  • LPC: Ligand-Protein Contacts for 5WVC
  • CSU: Contacts of Structural Units for 5WVC
  • Structure Factors (753 Kb)
  • Retrieve 5WVC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WVC from S2C, [Save to disk]
  • Re-refined 5wvc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5WVC 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 5WVC
  • 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
  • Fold representative 5wvc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5wvc_E] [5wvc_B] [5wvc] [5wvc_A] [5wvc_C] [5wvc_F] [5wvc_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5WVC
  • Community annotation for 5WVC at PDBWiki (http://pdbwiki.org)

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