Biological Assembly 1  

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

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 7.37 kDa 
• Atom Count: 486 
• Modelled Residue Count: 60 
• Deposited Residue Count: 65 
• Unique protein chains: 1

1W1F

SH3 DOMAIN OF HUMAN LYN TYROSINE KINASE

• PDB DOI: 10.2210/pdb1W1F/pdb
• BMRB: 6261

• Classification: SH3-DOMAIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2004-06-17 Released: 2005-07-06 
• Deposition Author(s): Bauer, F., Schweimer, K., Hoffmann, S., Roesch, P., Sticht, H.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 60 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 

Literature

Structural Characterization of Lyn-SH3 Domain in Complex with a Herpesviral Protein Reveals an Extended Recognition Motif that Enhances Binding Affinity.

Bauer, F., Schweimer, K., Meiselbach, H., Hoffmann, S., Roesch, P., Sticht, H.

(2005) Protein Sci 14: 2487

• PubMed: 16155203 
• DOI: 10.1110/ps.051563605
• Primary Citation of Related Structures:  
  1W1F


• PubMed Abstract: 
  

The Src homology 3 (SH3) domain of the Src family kinase Lyn binds to the herpesviral tyrosine kinase interacting protein (Tip) more than one order of magnitude stronger than other closely related members of the Src family. In order to identify the molecular basis for high-affinity binding, the structure of free and Tip-bound Lyn-SH3 was determined by NMR spectroscopy. Tip forms additional contacts outside its classical proline-rich recognition motif and, in particular, a strictly conserved leucine (L186) of the C-terminally adjacent sequence stretch packs into a hydrophobic pocket on the Lyn surface. Although the existence of this pocket is no unique property of Lyn-SH3, Lyn is the only Src family kinase that contains an additional aromatic residue (H41) in the n-Src loop as part of this pocket. H41 covers L186 of Tip by forming tight hydrophobic contacts, and model calculations suggest that the increase in binding affinity compared with other SH3 domains can mainly be attributed to these additional interactions. These findings indicate that this pocket can mediate specificity even between otherwise closely related SH3 domains.

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Organizational Affiliation: 

Lehrstuhl für Biopolymere, Universität Bayreuth, 95440 Bayreuth, Germany.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TYROSINE-PROTEIN KINASE LYN	A	65	Homo sapiens	Mutation(s): 0  Gene Names: LYN, JTK8 EC: 2.7.1.112 (PDB Primary Data), 2.7.10.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P07948 (Homo sapiens) Explore P07948  Go to UniProtKB:  P07948
PHAROS:  P07948

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 60 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 
• OLDERADO: 1W1F Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-06-17 
• Released Date: 2005-07-06 
Deposition Author(s): Bauer, F., Schweimer, K., Hoffmann, S., Roesch, P., Sticht, H.

Revision History  

• Version 1.0: 2005-07-06
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-01-15
  Changes: Data collection, Other