6PY2
HLA-TCR complex
- PDB DOI: https://doi.org/10.2210/pdb6PY2/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Homo sapiens, Triticum aestivum
- Expression System: Baculovirus expression vector pFastBac1-HM, Escherichia coli BL21
- Mutation(s): No
- Deposited: 2019-07-28 Released: 2020-01-15
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.83 Å
- R-Value Free: 0.244
- R-Value Work: 0.216
- R-Value Observed: 0.217
wwPDB Validation 3D Report Full Report
Currently 6PY2 does not have a validation slider image.
This is version 1.5 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| HLA class II histocompatibility antigen DQ alpha chain | 254 | Homo sapiens | Mutation(s): 0 Gene Names: HLA-DQA1 |  | |
UniProt | |||||
Find proteins for Q08AS3 (Homo sapiens) Explore Q08AS3 Go to UniProtKB: Q08AS3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q08AS3 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| HLA class II histocompatibility antigen DQ beta chain | 261 | Homo sapiens | Mutation(s): 0 Gene Names: HLA-DQB1 |  | |
UniProt | |||||
Find proteins for A0A0U5IHY9 (Homo sapiens) Explore A0A0U5IHY9 Go to UniProtKB: A0A0U5IHY9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0U5IHY9 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| DQ2.2-glut-L1 | 12 | Triticum aestivum | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for P16315 (Triticum aestivum) Explore P16315 Go to UniProtKB: P16315 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P16315 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| T-cell receptor, T594, alpha chain,T-cell receptor, T594, alpha chain | 206 | Homo sapiens | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for K7N5N2 (Homo sapiens) Explore K7N5N2 Go to UniProtKB: K7N5N2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | K7N5N2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 5 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| T-cell receptor, T594, beta chain,T-cell receptor, T594, beta chain | 245 | Homo sapiens | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for K7N5M4 (Homo sapiens) Explore K7N5M4 Go to UniProtKB: K7N5M4 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | K7N5M4 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | F [auth A], G [auth A], I [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
| GOL Query on GOL | H [auth A], J [auth E] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.83 Å
- R-Value Free: 0.244
- R-Value Work: 0.216
- R-Value Observed: 0.217
- Space Group: C 2 2 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.28 | α = 90 |
| b = 275.14 | β = 90 |
| c = 141.55 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| iMOSFLM | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Structure Validation
Currently 6PY2 does not have a validation slider image.
Entry History
Deposition Data
- Released Date: 2020-01-15 Deposition Author(s): Ting, Y.T., Peteren, J., Reid, H.H., Rossjohn, J.
Revision History (Full details and data files)
- Version 1.0: 2020-01-15
Type: Initial release - Version 1.1: 2020-01-22
Changes: Database references - Version 1.2: 2020-02-05
Changes: Database references - Version 1.3: 2020-02-26
Changes: Data collection, Database references - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.5: 2023-10-11
Changes: Data collection, Database references, Refinement description, Structure summary
