1JQH | pdb_00001jqh

IGF-1 receptor kinase domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 
    0.219 (Depositor), 0.207 (DCC) 
  • R-Value Work: 
    0.195 (Depositor), 0.190 (DCC) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1JQH

Ligand Structure Quality Assessment 


This is version 1.4 of the entry. See complete history

Literature

Crystal structure of bisphosphorylated IGF-1 receptor kinase: insight into domain movements upon kinase activation.

Pautsch, A.Zoephel, A.Ahorn, H.Spevak, W.Hauptmann, R.Nar, H.

(2001) Structure 9: 955-965

  • DOI: https://doi.org/10.1016/s0969-2126(01)00655-4
  • Primary Citation Related Structures: 
    1JQH

  • PubMed Abstract: 

    The insulin-like growth-factor-1 (IGF-1) receptor, which is widely expressed in cells that have undergone oncogenic transformation, is emerging as a novel target in cancer therapy. IGF-1-induced receptor activation results in autophosphorylation of cytoplasmic kinase domains and enhances their capability to phosphorylate downstream substrates. Structures of the homologous insulin receptor kinase (IRK) exist in an open, unphosphorylated form and a closed, trisphosphorylated form. We have determined the 2.1 A crystal structure of the IGF-1 receptor protein tyrosine kinase domain phosphorylated at two tyrosine residues within the activation loop (IGF-1RK2P) and bound to an ATP analog. The ligand is not in a conformation compatible with phosphoryl transfer, and the activation loop is partially disordered. Compared to the homologous insulin receptor kinase, IGF-1RK2P is trapped in a half-closed, previously unobserved conformation. Observed domain movements can be dissected into two orthogonal rotational components. Conformational changes upon kinase activation are triggered by the degree of phosphorylation and are crucially dependent on the conformation of the proximal end of the kinase activation loop. This IGF-1RK structure will provide a molecular basis for the design of selective antioncogenic therapeutic agents.


  • Organizational Affiliation
    • Boehringer Ingelheim Pharma KG Deutschland, Birkendorferstrasse 65, D-88400 Biberach, Germany. alexander.pautsch@bc.boehringer-ingelheim.com

Macromolecule Content 

  • Total Structure Weight: 107.14 kDa 
  • Atom Count: 7,292 
  • Modeled Residue Count: 869 
  • Deposited Residue Count: 924 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
IGF-1 receptor kinase
A, B, C
308Homo sapiensMutation(s): 2 
EC: 2.7.1.112 (PDB Primary Data), 2.7.10.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P08069 (Homo sapiens)
Explore P08069 
Go to UniProtKB:  P08069
PHAROS:  P08069
GTEx:  ENSG00000140443 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08069
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ANP

Query on ANP



Download:Ideal Coordinates CCD File
F [auth A],
H [auth B],
J [auth C]
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N
SO4

Query on SO4



Download:Ideal Coordinates CCD File
E [auth A],
G [auth B],
I [auth C]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
MG

Query on MG



Download:Ideal Coordinates CCD File
D [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free:  0.219 (Depositor), 0.207 (DCC) 
  • R-Value Work:  0.195 (Depositor), 0.190 (DCC) 
Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.963α = 90
b = 85.963β = 90
c = 132.204γ = 120
Software Package:
Software NamePurpose
SHARPphasing
CNXrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2002-04-19
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-11-10
    Changes: Database references, Derived calculations
  • Version 1.4: 2024-12-25
    Changes: Advisory, Data collection, Derived calculations, Structure summary