Download MendeleyHUMAN LEUKOCYTE ANTIGEN B*07:02 IN COMPLEX WITH SARS-COV2 EPITOPE N105-113 (Y111F mutant)
Oltean, N., Nyovanie, S., Hashem, A., Patskovska, L., Patskovsky, Y., Krogsgaard, M.To be published.
8UTC | pdb_00008utc
HUMAN LEUKOCYTE ANTIGEN B*07:02 IN COMPLEX WITH SARS-COV2 EPITOPE N105-113 (Y111F mutant)
- PDB DOI: https://doi.org/10.2210/pdb8UTC/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Homo sapiens, Severe acute respiratory syndrome coronavirus 2
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2023-10-30 Released: 2025-03-19
- Funding Organization(s): National Institutes of Health/National Center for Advancing Translational Sciences (NIH/NCATS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 ?
- R-Value Free: 0.240 (Depositor), 0.240 (DCC)
- R-Value Work: 0.183 (Depositor), 0.193 (DCC)
- R-Value Observed: 0.185 (Depositor)
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.0 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| HLA class I histocompatibility antigen, B alpha chain | 276 | Homo sapiens | Mutation(s): 0 Gene Names: HLA-B |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01889 (Homo sapiens) Explore P01889 Go to UniProtKB: P01889 | |||||
PHAROS: P01889 GTEx: ENSG00000234745 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P01889 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Beta-2-microglobulin | 100 | Homo sapiens | Mutation(s): 0 Gene Names: B2M, CDABP0092, HDCMA22P |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P61769 (Homo sapiens) Explore P61769 Go to UniProtKB: P61769 | |||||
PHAROS: P61769 GTEx: ENSG00000166710 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P61769 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Nucleoprotein | 9 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 1 |  | |
UniProt | |||||
Find proteins for P0DTC9 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC9 Go to UniProtKB: P0DTC9 | |||||
Entity Groups | |||||
| UniProt Group | P0DTC9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PG4 Query on PG4 | H [auth A], L [auth C] | TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N |  | ||
| PGE Query on PGE | G [auth A] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N |  | ||
| CL Query on CL | I [auth A], J [auth B], K [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 ?
- R-Value Free: 0.240 (Depositor), 0.240 (DCC)
- R-Value Work: 0.183 (Depositor), 0.193 (DCC)
- R-Value Observed: 0.185 (Depositor)
Space Group: P 21 21 21
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 70.067 | ¦Á = 90 |
| b = 84.737 | ¦Â = 90 |
| c = 154.189 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| HKL-3000 | data scaling |
| Aimless | data scaling |
| PHASER | phasing |
| REFMAC | refinement |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-03-19 Deposition Author(s): Oltean, N., Nyovanie, S., Hashem, A., Patskovska, L., Patskovsky, Y., Krogsgaard, M.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Center for Advancing Translational Sciences (NIH/NCATS) | United States | UL1-TR001445-06-A1-S1 |
Revision History (Full details and data files)
- Version 1.0: 2025-03-19
Type: Initial release
