8ZD4 | pdb_00008zd4

Cryo-EM structure of the gdTCR-ECD

• PDB DOI: https://doi.org/10.2210/pdb8ZD4/pdb
• EM Map EMD-39950: EMDB EMDataResource

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-05-01 Released: 2025-05-07 
• Deposition Author(s): Bai, Y., Zhu, Y., Huang, Z.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of the gdTCR-ECD

Bai, Y., Zhu, Y., Huang, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 97.08 kDa 
• Atom Count: 6,795 
• Modelled Residue Count: 850 
• Deposited Residue Count: 852 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRA@ protein	A, C [auth D]	202	Homo sapiens	Mutation(s): 0  Gene Names: TRA@
UniProt
Find proteins for Q6PJ56 (Homo sapiens) Explore Q6PJ56  Go to UniProtKB:  Q6PJ56

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
gamma chain	B, D [auth G]	224	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20_4459:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-07 
Deposition Author(s): Bai, Y., Zhu, Y., Huang, Z.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-05-07
  Type: Initial release