1ATP

2.2 angstrom refined crystal structure of the catalytic subunit of cAMP-dependent protein kinase complexed with MNATP and a peptide inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Work: 0.177 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

2.2 A refined crystal structure of the catalytic subunit of cAMP-dependent protein kinase complexed with MnATP and a peptide inhibitor.

Zheng, J.Trafny, E.A.Knighton, D.R.Xuong, N.H.Taylor, S.S.Ten Eyck, L.F.Sowadski, J.M.

(1993) Acta Crystallogr D Biol Crystallogr 49: 362-365

  • DOI: 10.1107/S0907444993000423
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • . The crystal structure of a ternary complex containing the catalytic subunit of cAMP-dependent protein kinase, ATP and a 20-residue inhibitor peptide was refined at a resolution of 2.2 A to an R value of 0.177. In order to identify the metal binding ...

    . The crystal structure of a ternary complex containing the catalytic subunit of cAMP-dependent protein kinase, ATP and a 20-residue inhibitor peptide was refined at a resolution of 2.2 A to an R value of 0.177. In order to identify the metal binding sites, the crystals, originally grown in the presence of low concentrations of Mg(2+), were soaked in Mn(2+). Two Mn(2+) ions were identified using an anomalous Fourier map. One Mn(2+) ion bridges the gamma- and beta-phosphates and interacts with Asp184 and two water molecules. The second Mn(2+) ion interacts with the side chains of Asn171 and Asp l84 as well as with a water molecule. Modeling a serine into the P site of the inhibitor peptide suggests a mechanism for phosphotransfer.


    Related Citations: 
    • 2.0 Angstrom Refined Crystal Structure of the Catalytic Subunit of Camp-Dependent Protein Kinase Complexed with a Peptide Inhibitor and Detergent
      Knighton, D.R., Bell, S.M., Zheng, J., Teneyck, L.F., Xuong, N.-H., Taylor, S.S., Sowadski, J.M.
      () To be published --: --
    • Crystal Structure of the Catalytic Subunit of cAMP-Dependent Protein Kinase Complexed with Mg/ATP and Peptide Inhibitor
      Zheng, J., Knighton, D.R., Teneyck, L.F., Karlsson, R., Xuong, N.-H., Taylor, S.S., Sowadski, J.M.
      (1993) Biochemistry 32: 2154
    • Crystal Structure of the Catalytic Subunit of Cyclic Adenosine Monophosphate-Dependent Protein Kinase
      Knighton, D.R., Zheng, J., Teneyck, L.F., Xuong, V.A., Ashford, N.-H., Taylor, S.S., Sowadski, J.M.
      (1991) Science 253: 407
    • Structure of a Peptide Inhibitor Bound to the Catalytic Subunit of Cyclic Adenosine Monophosphate-Dependent Protein Kinase
      Knighton, D.R., Zheng, J., Teneyck, L.F., Xuong, N.-H., Taylor, S.S., Sowadski, J.M.
      (1991) Science 253: 414
    • Expression of the Catalytic Subunit of C/AMP-Dependent Protein Kinase in Escherichia Coli
      Slice, L.W., Taylor, S.S.
      (1989) J Biol Chem 264: 20940

    Organizational Affiliation

    Department of Chemistry, University of California, San Diego, La Jolla 92093-0654, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
cAMP-DEPENDENT PROTEIN KINASEE350Mus musculusMutation(s): 0 
Gene Names: PrkacaPkaca
EC: 2.7.1.37 (PDB Primary Data), 2.7.11.11 (UniProt)
Find proteins for P05132 (Mus musculus)
Explore P05132 
Go to UniProtKB:  P05132
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by: Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PEPTIDE INHIBITOR PKI(5-24)I20Mus musculusMutation(s): 0 
Gene Names: Pkia
Find proteins for P63248 (Mus musculus)
Explore P63248 
Go to UniProtKB:  P63248
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download CCD File 
E
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
MN
Query on MN

Download CCD File 
E
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
SEP
Query on SEP
EL-PEPTIDE LINKINGC3 H8 N O6 PSER
TPO
Query on TPO
EL-PEPTIDE LINKINGC4 H10 N O6 PTHR
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
ATPKd:  60   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Work: 0.177 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.58α = 90
b = 76.28β = 90
c = 80.58γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
TNTrefinement
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-04-15
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2019-07-17
    Changes: Data collection, Derived calculations, Other, Refinement description
  • Version 1.4: 2019-08-14
    Changes: Data collection, Refinement description