1DF0 Hydrolase date Nov 16, 1999
title Crystal Structure Of M-Calpain
authors C.M.Hosfield, J.S.Elce, P.L.Davies, Z.Jia
compound source
Molecule: M-Calpain
Chain: A
Fragment: Large (Catalytic) Subunit
Synonym: Calcium-Activated Neutral Proteinase, Calpain 2
Ec: 3.4.22.53
Engineered: Yes
Mutation: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Calpain
Chain: B
Fragment: Domain Vi (Calcium-Binding Domain), Small (Regula Subunit;
Synonym: Calcium-Activated Neutral Proteinase
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.223 R_Free 0.293
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.696 80.181 80.720 60.37 70.85 79.49
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Hydrolase E.C.3.4.22.53 BRENDA
related structures by homologous chain: 1KFU, 1QXP
Gene
Ontology
ChainFunctionProcessComponent
A
  • proteolysis

  • B


    Primary referenceCrystal structure of calpain reveals the structural basis for Ca(2+)-dependent protease activity and a novel mode of enzyme activation., Hosfield CM, Elce JS, Davies PL, Jia Z, EMBO J 1999 Dec 15;18(24):6880-9. PMID:10601010
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (142 Kb) [Save to disk]
  • Biological Unit Coordinates (1df0.pdb1.gz) 137 Kb
  • CSU: Contacts of Structural Units for 1DF0
  • Likely Quarternary Molecular Structure file(s) for 1DF0
  • Retrieve 1DF0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DF0 from S2C, [Save to disk]
  • View 1DF0 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 1DF0
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1DF0, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1df0a3, region A:2-355 [Jmol] [rasmolscript] [script source]
        - Domain d1df0a2, region A:356-514 [Jmol] [rasmolscript] [script source]
        - Domain d1df0a1, region A:515-700 [Jmol] [rasmolscript] [script source]
        - Domain d1df0b_, region B [Jmol] [rasmolscript] [script source]
  • 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: [1df0_B] [1df0] [1df0_A]
  • SWISS-PROT database: [Q07009] [Q64537]
  • Domain organization of [CAN2_RAT] [CPNS1_RAT] by SWISSPFAM
  • Domains found in 1DF0: [CysPc] [EFh] [calpain_III ] by SMART
  • Other resources with information on 1DF0
  • Community annotation for 1DF0 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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