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: 8.56 kDa 
• Atom Count: 606 
• Modelled Residue Count: 73 
• Deposited Residue Count: 73 
• Unique protein chains: 2

1L2Z

CD2BP2-GYF domain in complex with proline-rich CD2 tail segment peptide

• PDB DOI: 10.2210/pdb1L2Z/pdb

• Classification: PEPTIDE BINDING/SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2002-02-26 Released: 2002-11-20 
• Deposition Author(s): Freund, C., Kuhne, R., Yang, H., Park, S., Reinherz, E.L., Wagner, G.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Dynamic interaction of CD2 with the GYF and the SH3 domain of compartmentalized effector molecules

Freund, C., Kuhne, R., Yang, H., Park, S., Reinherz, E.L., Wagner, G.

(2002) EMBO J 21: 5985-5995

• PubMed: 12426371 
• DOI: 10.1093/emboj/cdf602
• Primary Citation of Related Structures:  
  1L2Z


• PubMed Abstract: 
  

Intracellular protein interaction domains are essential for eukaryotic signaling. In T cells, the CD2BP2 adaptor binds two membrane-proximal proline-rich motifs in the CD2 cytoplasmic tail via its GYF domain, thereby regulating interleukin-2 production. Here we present the structure of the GYF domain in complex with a CD2 tail peptide. Unlike SH3 domains, which use two surface pockets to accommodate proline residues of ligands, the GYF domain employs phylogenetically conserved hydrophobic residues to create a single interaction surface. NMR analysis shows that the Fyn but not the Lck tyrosine kinase SH3 domain competes with CD2BP2 GYF-domain binding to the same CD2 proline-rich sequence in vitro. To test the in vivo significance of this competition, we used co-immunoprecipitation experiments and found that CD2BP2 is the ligand of the membrane-proximal proline-rich tandem repeat of CD2 in detergent-soluble membrane compartments, but is replaced by Fyn SH3 after CD2 is translocated into lipid rafts upon CD2 ectodomain clustering. This unveils the mechanism of a switch of CD2 function due to an extracellular mitogenic signal.

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Organizational Affiliation: 

Protein Engineering Group and Molecular Modeling Group, Forschungsinstitut für Molekulare Pharmakologie and Freie Universität Berlin, Robert-Rössle-Strasse 10, D-13125 Berlin, Germany. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CD2 ANTIGEN (CYTOPLASMIC TAIL)-BINDING PROTEIN 2	A	62	Homo sapiens	Mutation(s): 0  Gene Names: CD2BP2 (amino acids 280-341), CD2BP2, KIAA1178
UniProt & NIH Common Fund Data Resources
Find proteins for O95400 (Homo sapiens) Explore O95400  Go to UniProtKB:  O95400
PHAROS:  O95400 GTEx:  ENSG00000169217

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
T-CELL SURFACE ANTIGEN CD2	B	11	N/A	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P06729 (Homo sapiens) Explore P06729  Go to UniProtKB:  P06729
PHAROS:  P06729 GTEx:  ENSG00000116824

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 1L2Z Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-02-26 
• Released Date: 2002-11-20 
Deposition Author(s): Freund, C., Kuhne, R., Yang, H., Park, S., Reinherz, E.L., Wagner, G.

Revision History  

• Version 1.0: 2002-11-20
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-23
  Changes: Database references, Derived calculations