1ZRZ

Crystal Structure of the Catalytic Domain of Atypical Protein Kinase C-iota


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.249 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of the Catalytic Domain of Human Atypical Protein Kinase C-iota Reveals Interaction Mode of Phosphorylation Site in Turn Motif

Messerschmidt, A.Macieira, S.Velarde, M.Baedeker, M.Benda, C.Jestel, A.Brandstetter, H.Neuefeind, T.Blaesse, M.

(2005) J.Mol.Biol. 352: 918-931

  • DOI: 10.1016/j.jmb.2005.07.060

  • PubMed Abstract: 
  • Atypical protein kinases C (aPKCs) play critical roles in signaling pathways that control cell growth, differentiation and survival. Therefore, they constitute attractive targets for the development of novel therapeutics against cancer. The crystal s ...

    Atypical protein kinases C (aPKCs) play critical roles in signaling pathways that control cell growth, differentiation and survival. Therefore, they constitute attractive targets for the development of novel therapeutics against cancer. The crystal structure of the catalytic domain of atypical PKCiota in complex with the bis(indolyl)maleimide inhibitor BIM1 has been determined at 3.0A resolution within the frame of the European Structural Proteomics Project SPINE. The overall structure exhibits the classical bilobal kinase fold and is in its fully activated form. Both phosphorylation sites (Thr403 in the activation loop, and Thr555 in the turn motif) are well defined in the structure and form intramolecular ionic contacts that make an important contribution in stabilizing the active conformation of the catalytic subunit. The phosphorylation site in the hydrophobic motif of atypical PKCs is replaced by the phosphorylation mimic glutamate and this is also clearly seen in the structure of PKCiota (residue 574). This structure determination for the first time provides the architecture of the turn motif phosphorylation site, which is characteristic for PKCs and PKB/AKT, and is completely different from that in PKA. The bound BIM1 inhibitor blocks the ATP-binding site and puts the kinase domain into an intermediate open conformation. The PKCiota-BIM1 complex is the first kinase domain crystal structure of any atypical PKC and constitutes the basis for rational drug design for selective PKCiota inhibitors.


    Organizational Affiliation

    Department of Structural Research, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany. messersc@biochem.mpg.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Protein kinase C, iota
A
364Homo sapiensMutation(s): 0 
Gene Names: PRKCI (DXS1179E)
EC: 2.7.11.13
Find proteins for P41743 (Homo sapiens)
Go to Gene View: PRKCI
Go to UniProtKB:  P41743
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BI1
Query on BI1

Download SDF File 
Download CCD File 
A
3-{1-[3-(DIMETHYLAMINO)PROPYL]-1H-INDOL-3-YL}-4-(1H-INDOL-3-YL)-1H-PYRROLE-2,5-DIONE
RBT205 INHIBITOR
C25 H24 N4 O2
QMGUOJYZJKLOLH-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
TPO
Query on TPO
A
L-PEPTIDE LINKINGC4 H10 N O6 PTHR
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BI1IC50: 3463 nM (99) BINDINGDB
BI1IC50: 5800 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.249 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 78.143α = 90.00
b = 78.143β = 90.00
c = 112.625γ = 120.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
CCP4data scaling
CNSrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-09-13
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance