5YXU | pdb_00005yxu

an affinity enhanced T cell receptor in complex with HLA-A0201 restricted HCV NS3 peptide KLVALGINAV

• PDB DOI: https://doi.org/10.2210/pdb5YXU/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Hepacivirus hominis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-12-07 Released: 2018-12-12 
• Deposition Author(s): Yi, L.
• Funding Organization(s): Science and Technology Program of Guangzhou, the National Key R&D program 2016YFC1303404, cience and Technology Program of Guangzhou

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.289 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.235 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.238 (Depositor) 

Literature

an affinity enhanced T cell receptor in complex with HLA-A0201 restricted HCV NS3 peptide KLVALGINAV

Yi, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 187.6 kDa 
• Atom Count: 13,276 
• Modeled Residue Count: 1,632 
• Deposited Residue Count: 1,638 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T cell receptor alpha chain	A [auth F], C [auth A]	191	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
T cell receptor beta chain	B [auth G], D [auth B]	242	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA class I histocompatibility antigen, A-2 alpha chain	E [auth C], G [auth E]	276	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A, HLAA
UniProt & NIH Common Fund Data Resources
Find proteins for P04439 (Homo sapiens) Explore P04439  Go to UniProtKB:  P04439
PHAROS:  P04439 GTEx:  ENSG00000206503

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	F [auth D], H	100	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
PHAROS:  P61769 GTEx:  ENSG00000166710

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
LYS-LEU-VAL-ALA-LEU-GLY-ILE-ASN-ALA-VAL	I, J	10	Hepacivirus hominis	Mutation(s): 0
UniProt
Find proteins for P27958 (Hepatitis C virus genotype 1a (isolate H77)) Explore P27958  Go to UniProtKB:  P27958

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.289 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.235 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.238 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.106	α = 90
b = 223.107	β = 98.3
c = 71.855	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-12-12 
Deposition Author(s): Yi, L.

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Funding Organization	Location	Grant Number
Science and Technology Program of Guangzhou	China	201504010016
the National Key R&D program 2016YFC1303404	China	2016YFC1303404
cience and Technology Program of Guangzhou	China	201704020220

Revision History  

• Version 1.0: 2018-12-12
  Type: Initial release
  
• Version 1.1: 2019-02-27
  Changes: Data collection, Derived calculations
• Version 1.2: 2024-10-09
  Changes: Data collection, Database references, Structure summary