3NSJ Immune System date Jul 01, 2010
title The X-Ray Crystal Structure Of Lymphocyte Perforin
authors R.H.Law, J.C.Whisstock, T.T.Caradoc-Davies
compound source
Molecule: Perforin-1
Chain: A
Synonym: P1, Lymphocyte Pore-Forming Protein, Cytolysin
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Prf1, Pfp
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf21
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pbacpak9
symmetry Space Group: P 21 21 21
R_factor 0.196 R_Free 0.215
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.640 109.800 141.030 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand CA, CL, GOL, IOD, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • wide pore channel activity


  • Primary referenceThe structural basis for membrane binding and pore formation by lymphocyte perforin., Law RH, Lukoyanova N, Voskoboinik I, Caradoc-Davies TT, Baran K, Dunstone MA, D'Angelo ME, Orlova EV, Coulibaly F, Verschoor S, Browne KA, Ciccone A, Kuiper MJ, Bird PI, Trapani JA, Saibil HR, Whisstock JC, Nature. 2010 Nov 18;468(7322):447-51. Epub 2010 Oct 31. PMID:21037563
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (182 Kb) [Save to disk]
  • Biological Unit Coordinates (3nsj.pdb1.gz) 176 Kb
  • LPC: Ligand-Protein Contacts for 3NSJ
  • CSU: Contacts of Structural Units for 3NSJ
  • Structure Factors (674 Kb)
  • Retrieve 3NSJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NSJ from S2C, [Save to disk]
  • Re-refined 3nsj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NSJ 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 3NSJ
  • 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 3NSJ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nsj_A] [3nsj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3NSJ: [C2] [MACPF ] by SMART
  • Other resources with information on 3NSJ
  • Community annotation for 3NSJ 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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