1NW9 Apoptosis date Feb 05, 2003
title Structure Of Caspase-9 In An Inhibitory Complex With Xiap-Bi
authors E.N.Shiozaki, J.Chai, D.J.Rigotti, S.J.Riedl, P.Li, S.M.Srinivasu E.S.Alnemri, R.Fairman, Y.Shi
compound source
Molecule: Baculoviral Iap Repeat-Containing Protein 4
Chain: A
Synonym: Inhibitor Of Apoptosis Protein 3, X-Linked Inhibit Apoptosis Protein, X-Linked Iap, Iap-Like Protein, Hilp, Th Domain Of Xiap;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Birc4 Or Api3 Or Iap3 Or Xiap
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Caspase 9, Apoptosis-Related Cysteine Protease
Chain: B
Synonym: Catalytic Domain Of Caspase-9
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65 2 2
R_factor 0.230 R_Free 0.235
length a length b length c angle alpha angle beta angle gamma
104.400 104.400 170.300 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand ZN enzyme
note 1NW9 (Molecule of the Month:pdb56)
related structures by homologous chain: 1JXQ, 1XB0, 1XB1

Primary referenceMechanism of XIAP-mediated inhibition of caspase-9., Shiozaki EN, Chai J, Rigotti DJ, Riedl SJ, Li P, Srinivasula SM, Alnemri ES, Fairman R, Shi Y, Mol Cell 2003 Feb;11(2):519-27. PMID:12620238
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (1nw9.pdb1.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 1NW9
  • CSU: Contacts of Structural Units for 1NW9
  • Likely Quarternary Molecular Structure file(s) for 1NW9
  • Retrieve 1NW9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NW9 from S2C, [Save to disk]
  • View 1NW9 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 1NW9
  • 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 1NW9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nw9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1nw9b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1nw9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1nw9_B] [1nw9] [1nw9_A]
  • SWISS-PROT database: [P55211] [P98170]
  • Domain organization of [CASP9_HUMAN] [XIAP_HUMAN] by SWISSPFAM
  • Domains found in 1NW9: [BIR] [CASc ] by SMART
  • Other resources with information on 1NW9
  • Community annotation for 1NW9 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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