Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 8.96 kDa 
• Atom Count: 568 
• Modelled Residue Count: 72 
• Deposited Residue Count: 81 
• Unique protein chains: 2

1AZG

NMR STUDY OF THE SH3 DOMAIN FROM FYN PROTO-ONCOGENE TYROSINE KINASE KINASE COMPLEXED WITH THE SYNTHETIC PEPTIDE P2L CORRESPONDING TO RESIDUES 91-104 OF THE P85 SUBUNIT OF PI3-KINASE, MINIMIZED AVERAGE (PROBMAP) STRUCTURE

• PDB DOI: 10.2210/pdb1AZG/pdb

• Classification: COMPLEX (PHOSPHOTRANSFERASE/PEPTIDE)
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 1997-11-18 Released: 1998-02-25 
• Deposition Author(s): Renzoni, D.A., Pugh, D.J.R., Siligardi, G., Das, P., Morton, C.J., Rossi, C., Waterfield, M.D., Campbell, I.D., Ladbury, J.E.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 1 

Literature

Structural and thermodynamic characterization of the interaction of the SH3 domain from Fyn with the proline-rich binding site on the p85 subunit of PI3-kinase.

Renzoni, D.A., Pugh, D.J., Siligardi, G., Das, P., Morton, C.J., Rossi, C., Waterfield, M.D., Campbell, I.D., Ladbury, J.E.

(1996) Biochemistry 35: 15646-15653

• PubMed: 8961927 
• DOI: 10.1021/bi9620969
• Primary Citation of Related Structures:  
  1A0N, 1AZG


• PubMed Abstract: 
  

The interaction of the Fyn SH3 domain with the p85 subunit of PI3-kinase is investigated using structural detail and thermodynamic data. The solution structure complex of the SH3 domain with a proline-rich peptide mimic of the binding site on the p85 subunit is described. This indicates that the peptide binds as a poly(L-proline) type II helix. Circular dichroism spectroscopic studies reveal that in the unbound state the peptide exhibits no structure. Thermodynamic data for the binding of this peptide to the SH3 domain suggest that the weak binding (approximately 31 microM) of this interaction is, in part, due to the entropically unfavorable effect of helix formation (delta S0 = -78 J.mol-1.K-1). Binding of the SH3 domain to the intact p85 subunit (minus its own SH3 domain) is tighter, and the entropic and enthalpic contributions are very different from those given by the peptide interaction (delta S0 = +252 J.mol-1.K-1; delta H0 = +44 kJ.mol-1). From these dramatically different thermodynamic measurements we are able to conclude that the interaction of the proline-rich peptide does not effectively mimic the interaction of the intact p85 subunit with the SH3 domain and suggest that other interactions could be important.

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Related Citations: 

• Solution Structure and Peptide Binding of the SH3 Domain from Human Fyn
  Morton, C.J., Pugh, D.J., Brown, E.L., Kahmann, J.D., Renzoni, D.A., Campbell, I.D.
  (1996) Structure 4: 705

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Organizational Affiliation: 

Oxford Centre for Molecular Science, University of Oxford, U.K.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PRO-PRO-ARG-PRO-LEU-PRO-VAL-ALA-PRO-GLY-SER-SER-LYS-THR	A	14	N/A	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P27986 (Homo sapiens) Explore P27986  Go to UniProtKB:  P27986
PHAROS:  P27986 GTEx:  ENSG00000145675

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
FYN	B	67	Homo sapiens	Mutation(s): 0  Gene Names: FYN EC: 2.7.1.112 (PDB Primary Data), 2.7.10.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P06241 (Homo sapiens) Explore P06241  Go to UniProtKB:  P06241
PHAROS:  P06241

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 1 
• OLDERADO: 1AZG Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-11-18 
• Released Date: 1998-02-25 
Deposition Author(s): Renzoni, D.A., Pugh, D.J.R., Siligardi, G., Das, P., Morton, C.J., Rossi, C., Waterfield, M.D., Campbell, I.D., Ladbury, J.E.

Revision History  

• Version 1.0: 1998-02-25
  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: 2022-02-16
  Changes: Database references, Derived calculations, Other