1Q69 | pdb_00001q69

Solution structure of T-cell surface glycoprotein CD8 alpha chain and Proto-oncogene tyrosine-protein kinase LCK fragments

• PDB DOI: https://doi.org/10.2210/pdb1Q69/pdb
• BMRB: 5944
• BMRB: 5945

• Classification: MEMBRANE PROTEIN/TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2003-08-12 Released: 2003-11-25 
• Deposition Author(s): Kim, P.W., Sun, Z.Y., Blacklow, S.C., Wagner, G., Eck, M.J.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: The submitted conformer models are the 10 structures with the lowest energy. 

Literature

A zinc clasp structure tethers Lck to T cell coreceptors CD4 and CD8.

Kim, P.W., Sun, Z.Y., Blacklow, S.C., Wagner, G., Eck, M.J.

(2003) Science 301: 1725-1728

• PubMed: 14500983 
• DOI: https://doi.org/10.1126/science.1085643
• Primary Citation Related Structures: 
  1Q68, 1Q69


• PubMed Abstract: 
  

  The T cell coreceptors CD4 and CD8 both associate via their cytoplasmic tails with the N-terminus of the Src-family tyrosine kinase Lck. These interactions require zinc and are critical for T cell development and activation. We examined the folding and solution structures of ternary CD4-Lck-Zn2+ and CD8alpha-Lck-Zn2+ complexes. The coreceptor tails and the Lck N-terminus are unstructured in isolation but assemble in the presence of zinc to form compactly folded heterodimeric domains. The cofolded complexes have similar "zinc clasp" cores that are augmented by distinct structural elements. A dileucine motif required for clathrin-mediated endocytosis of CD4 is masked by Lck.

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Organizational Affiliation: 
• Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02115, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 5.63 kDa 
• Atom Count: 388 
• Modeled Residue Count: 48 
• Deposited Residue Count: 48 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD8 alpha chain	A	19	Homo sapiens	Mutation(s): 0  Gene Names: CD8A OR MAL
UniProt & NIH Common Fund Data Resources
Find proteins for P01732 (Homo sapiens) Explore P01732  Go to UniProtKB:  P01732
PHAROS:  P01732 GTEx:  ENSG00000153563

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Proto-oncogene tyrosine-protein kinase LCK	B	29	Homo sapiens	Mutation(s): 1  Gene Names: LCK EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P06239 (Homo sapiens) Explore P06239  Go to UniProtKB:  P06239
PHAROS:  P06239 GTEx:  ENSG00000182866

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: The submitted conformer models are the 10 structures with the lowest energy. 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-11-25 
Deposition Author(s): Kim, P.W., Sun, Z.Y., Blacklow, S.C., Wagner, G., Eck, M.J.

Revision History  

• Version 1.0: 2003-11-25
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-10-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-05-22
  Changes: Data collection