2X0G | pdb_00002x0g

X-RAY STRUCTURE OF A DAP-KINASE CALMODULIN COMPLEX


Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.20 Å
  • R-Value Free:&nbsp
    0.267 (Depositor), 0.290 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.201 (Depositor), 0.230 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.204&nbsp(Depositor)&nbsp

Starting Model: experimental
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wwPDB Validation&nbsp &nbsp3D Report&nbspFull Report


This is version 1.2 of the entry. See complete&nbsphistory.&nbsp


Literature

Molecular Basis of the Death-Associated Protein Kinase-Calcium/Calmodulin Regulator Complex.

De Diego, I.,&nbspKuper, J.,&nbspBakalova, N.,&nbspKursula, P.,&nbspWilmanns, M.

(2010) Sci Signal&nbsp3: RA6

  • DOI:&nbsphttps://doi.org/10.1126/scisignal.2000552
  • Primary Citation of Related Structures: &nbsp
    2X0G

  • PubMed Abstract:&nbsp

    Death-associated protein kinase (DAPK) provides a model for calcium-bound calmodulin (CaM)-dependent protein kinases (CaMKs). Here, we report the crystal structure of the binary DAPK-CaM complex, using a construct that includes the DAPK catalytic domain and adjacent autoregulatory domain. When DAPK was in a complex with CaM, the DAPK autoregulatory domain formed a long seven-turn helix. This DAPK-CaM module interacted with the DAPK catalytic domain through two separate domain-domain interfaces, which involved the upper and the lower lobe of the catalytic domain. When bound to DAPK, CaM adopted an extended conformation, which was different from that in CaM-CaMK peptide complexes. Complementary biochemical analysis showed that the ability of DAPK to bind CaM correlated with its catalytic activity. Because many features of CaM binding are conserved in other CaMKs, our findings likely provide a generally applicable model for regulation of CaMK activity.


  • Organizational Affiliation:&nbsp

    European Molecular Biology Laboratory-Hamburg, Notkestrasse 85, D-22603 Hamburg, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DEATH-ASSOCIATED PROTEIN KINASE 1334Homo sapiensMutation(s): 0&nbsp
EC:&nbsp2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspP53355&nbsp(Homo sapiens)
Explore&nbspP53355&nbsp
Go to UniProtKB: &nbspP53355
PHAROS: &nbspP53355
GTEx: &nbspENSG00000196730&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP53355
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CALMODULIN148Homo sapiensMutation(s): 0&nbsp
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspP0DP23&nbsp(Homo sapiens)
Explore&nbspP0DP23&nbsp
Go to UniProtKB: &nbspP0DP23
PHAROS: &nbspP0DP23
GTEx: &nbspENSG00000198668&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DP23
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.20 Å
  • R-Value Free:&nbsp 0.267 (Depositor), 0.290 (DCC)&nbsp
  • R-Value Work:&nbsp 0.201 (Depositor), 0.230 (DCC)&nbsp
  • R-Value Observed:&nbsp0.204&nbsp(Depositor)&nbsp
Space Group:&nbspP 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.413α = 90
b = 101.694β = 90
c = 104.775γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View&nbspFull Validation Report



Entry History&nbsp

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-01-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description