27EB | pdb_000027eb

TCR-HLA-DQ2.5-glia-w2 complex

• PDB DOI: https://doi.org/10.2210/pdb27EB/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Baculovirus expression vector pFastBac1-HM, Mammalian expression vector BsrGI-MCS-pcDNA3.1
• Mutation(s): No 


• Deposited: 2026-05-28 Released: 2026-08-26 
• Deposition Author(s): Loh, T.J., Lim, J.J., Rossjohn, J.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.25 Å
• R-Value Free: 
  0.267 (Depositor), 0.267 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.221 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Models: experimental

Literature

TCR-HLA-DQ2.5-glia-w2 complex

Loh, T.J., Lim, J.J., Rossjohn, J.

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: surface plasmon resonance

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 195.46 kDa 
• Atom Count: 12,810 
• Modeled Residue Count: 1,612 
• Deposited Residue Count: 1,700 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA class II histocompatibility antigen, DQ alpha 1 chain	A, D	190	Homo sapiens	Mutation(s): 0  Gene Names: HLA-DQA1
UniProt & NIH Common Fund Data Resources
Find proteins for P01909 (Homo sapiens) Explore P01909  Go to UniProtKB:  P01909
GTEx:  ENSG00000196735
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: P01909-1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
cDNA FLJ59004, highly similar to HLA class II histocompatibility antigen, DQ(1)beta chain	B, E	200	Homo sapiens	Mutation(s): 0
UniProt
Find proteins for B4E328 (Homo sapiens) Explore B4E328  Go to UniProtKB:  B4E328

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
glia-omega 2 peptide	C, F	12	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
TCR alpha chain	G, I	207	Homo sapiens	Mutation(s): 0
Glycosylation
Glycosylation Sites: 1

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
TCR beta chain	H, J	241	Homo sapiens	Mutation(s): 0
Glycosylation
Glycosylation Sites: 1

Oligosaccharides

Help  

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	K, L	2		N-Glycosylation

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	M [auth A], P [auth G], Q [auth H], R [auth I], S [auth J]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
GOL	N [auth D], O [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.25 Å
• R-Value Free:  0.267 (Depositor), 0.267 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.221 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.923	α = 90
b = 144.014	β = 90
c = 147.938	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-08-26 
Deposition Author(s): Loh, T.J., Lim, J.J., Rossjohn, J.

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Funding Organization	Location	Grant Number
Other private	Australia	--

Revision History  

• Version 1.0: 2026-08-26
  Type: Initial release