1PMX

INSULIN-LIKE GROWTH FACTOR-I BOUND TO A PHAGE-DERIVED PEPTIDE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: LEAST VIOLATION OF EXPERIMENTAL RESTRAINTS 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Complex with a Phage Display-Derived Peptide Provides Insight into the Function of Insulin-like Growth Factor I

Schaffer, M.L.Deshayes, K.Nakamura, G.Sidhu, S.Skelton, N.J.

(2003) Biochemistry 42: 9324-9334

  • DOI: 10.1021/bi034386c

  • PubMed Abstract: 
  • The dramatic improvement in the NMR spectra of insulin-like growth factor I (IGF-I) in the presence of a peptide identified from a phage display library has allowed for the first time the determination of a high-resolution solution structure for much ...

    The dramatic improvement in the NMR spectra of insulin-like growth factor I (IGF-I) in the presence of a peptide identified from a phage display library has allowed for the first time the determination of a high-resolution solution structure for much of IGF-I. The three helices of IGF-I in this complex have an arrangement similar to that seen in high-resolution crystal structures of IGF-I and insulin, although there are differences in the conformation and precise location of helix 3. A cluster of hydrophobic and basic side chains within the turn-helix motif of the peptide contact a hydrophobic patch on helices 1 and 3 of IGF-I. The importance of this patch for tight binding was verified using alanine scanning mutagenesis of the peptide in two different phage display formats. Consistent with its antagonistic activity, the peptide binds to a region implicated by mutagenesis studies to be important for association with IGF binding proteins (IGFBPs). The ability of the peptide to also inhibit signaling has important implications for the manner in which IGF-I interacts with its receptor. Interestingly, the peptide uses the same binding site as detergent and a fragment of IGFBP-5 identified in other IGF-I complexes. The ligand-induced structural variability of helix 3 in these complexes suggests that exchange between such conformations may be the source of the dynamic nature of free IGF-I and likely has functional significance for the ability of IGF-I to recognize two signaling receptors and six binding proteins with high affinity.


    Related Citations: 
    • Rapid Identification of Small Binding Motifs with High-Throughput Phage Display. Discovery of Peptidic Antagonists of Igf-1 Function
      Deshayes, K.,Schaffer, M.L.,Skelton, N.J.,Nakamura, G.R.,Kadkhodayan, S.,Sidhu, S.S.
      (2002) Chem.Biol. 9: 495


    Organizational Affiliation

    Department of Protein Engineering, Genentech, Inc., 1 DNA Way, South San Francisco, California 94080, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Insulin-like growth factor IB
A
70Homo sapiensMutation(s): 0 
Gene Names: IGF1 (IBP1)
Find proteins for P05019 (Homo sapiens)
Go to Gene View: IGF1
Go to UniProtKB:  P05019
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
IGF-1 ANTAGONIST F1-1
B
16N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: LEAST VIOLATION OF EXPERIMENTAL RESTRAINTS 
  • Olderado: 1PMX Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2003-06-11 
  • Released Date: 2003-10-21 
  • Deposition Author(s): Skelton, N.J.

Revision History 

  • Version 1.0: 2003-10-21
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance