3KJN Hydrolase Hydrolase Inhibitor date Nov 03, 2009
title Caspase 8 Bound To A Covalent Inhibitor
authors S.Kamtekar, W.Watt, B.C.Finzel, M.S.Harris, J.Blinn, Z.Wang, A.G.T
compound source
Molecule: Caspase-8
Chain: A
Fragment: Residues 211-374
Synonym: Casp-8, Ice-Like Apoptotic Protease 5, Mort1-Assoc Homolog, Mach, Fadd-Homologous Iceced-3-Like Protease, F Ice, Flice, Apoptotic Cysteine Protease, Apoptotic Protease Cap4, Caspase-8 Subunit P18, Caspase-8 Subunit P10;
Ec: 3.4.22.61
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Casp8, Mch5
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Caspase-8
Chain: B
Fragment: Residues 385-479
Synonym: Casp-8, Ice-Like Apoptotic Protease 5, Mort1-Assoc Homolog, Mach, Fadd-Homologous Iceced-3-Like Protease, F Ice, Flice, Apoptotic Cysteine Protease, Apoptotic Protease Cap4, Caspase-8 Subunit P18, Caspase-8 Subunit P10;
Ec: 3.4.22.61
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Casp8, Mch5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.167 R_Free 0.202
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.598 62.598 129.389 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand B93, DTT enzyme Hydrolase E.C.3.4.22.61 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceKinetic and structural characterization of caspase-3 and caspase-8 inhibition by a novel class of irreversible inhibitors., Wang Z, Watt W, Brooks NA, Harris MS, Urban J, Boatman D, McMillan M, Kahn M, Heinrikson RL, Finzel BC, Wittwer AJ, Blinn J, Kamtekar S, Tomasselli AG, Biochim Biophys Acta. 2010 Sep;1804(9):1817-1831. Epub 2010 May 24. PMID:20580860
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (3kjn.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 3KJN
  • CSU: Contacts of Structural Units for 3KJN
  • Structure Factors (401 Kb)
  • Retrieve 3KJN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KJN from S2C, [Save to disk]
  • Re-refined 3kjn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KJN 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 3KJN
  • 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 3KJN, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kjn_B] [3kjn_A] [3kjn]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3KJN: [CASc ] by SMART
  • Other resources with information on 3KJN
  • Community annotation for 3KJN 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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