3DF0 Hydrolase date Jun 11, 2008
title Calcium-Dependent Complex Between M-Calpain And Calpastatin
authors T.Moldoveanu, K.Gehring, D.R.Green
compound source
Molecule: Calpain-2 Catalytic Subunit
Chain: A
Synonym: Calpain-2 Large Subunit, Calcium-Activated Neutral Proteinase 2, Canp 2, Calpain M-Type, M-Calpain, Millimolar
Ec: 3.4.22.53
Engineered: Yes
Mutation: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Capn2
Expression_system: Escherichia Coli
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24d

Molecule: Calpain Small Subunit 1
Chain: B
Fragment: Unp Residues 87-270
Synonym: Css1, Calcium-Dependent Protease Small Subunit 1, Dependent Protease Small Subunit, Cdps, Calpain Regulatory Calcium-Activated Neutral Proteinase Small Subunit, Canp Sm Subunit;
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Capns1, Capn4, Css1
Expression_system: Escherichia Coli
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacpet

Molecule: Calpastatin
Chain: C
Fragment: Inhibitory Domain 1, Unp Residues 193-278
Synonym: Calpain Inhibitor
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Cast
Expression_system: Escherichia Coli
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24d
symmetry Space Group: P 42
R_factor 0.229 R_Free 0.299
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.390 147.390 47.222 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.95 Å
ligand CA enzyme Hydrolase E.C.3.4.22.53 BRENDA
note 3DF0 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A
  • proteolysis

  • B


    Primary referenceConcerted multi-pronged attack by calpastatin to occlude the catalytic cleft of heterodimeric calpains., Moldoveanu T, Gehring K, Green DR, Nature. 2008 Nov 20;456(7220):404-8. PMID:19020622
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (3df0.pdb1.gz) 146 Kb
  • LPC: Ligand-Protein Contacts for 3DF0
  • CSU: Contacts of Structural Units for 3DF0
  • Likely Quarternary Molecular Structure file(s) for 3DF0
  • Structure Factors (538 Kb)
  • Retrieve 3DF0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DF0 from S2C, [Save to disk]
  • Re-refined 3df0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DF0 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 3DF0
  • 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 3DF0, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3df0_C] [3df0_B] [3df0_] [3df0] [3df0_A]
  • SWISS-PROT database: [Q07009] [Q64537] [P27321]
  • Domain organization of [CAN2_RAT] [CPNS1_RAT] [ICAL_RAT] by SWISSPFAM
  • Domains found in 3DF0: [CysPc] [EFh] [calpain_III ] by SMART
  • Other resources with information on 3DF0
  • Community annotation for 3DF0 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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