Download MendeleyA single mutation in bovine influenza H5N1 hemagglutinin switches specificity to human receptors
Lin, T.H., Zhu, X., Wang, W., Zhang, D., McBride, R., Yu, W., Babarinde, S., Paulson, J.C., Wilson, I.A.(2024) Science
9DIP
Crystal structure of H5 hemagglutinin from the influenza virus A/Texas/37/2024 (H5N1) with LSTa
- PDB DOI: https://doi.org/10.2210/pdb9DIP/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Influenza A virus
- Expression System: Spodoptera aff. frugiperda 1 BOLD-2017
- Mutation(s): No
- Deposited: 2024-09-05 Released: 2024-12-04
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.32 Å
- R-Value Free: 0.258
- R-Value Work: 0.216
- R-Value Observed: 0.218
Starting Model: experimental
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This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Hemagglutinin HA1 | A, C, E [auth I] | 325 | Influenza A virus | Mutation(s): 0 Gene Names: HA |  |
UniProt | |||||
Find proteins for A0A6B7HPT9 (Influenza A virus) Explore A0A6B7HPT9 Go to UniProtKB: A0A6B7HPT9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A6B7HPT9 | ||||
Glycosylation | |||||
| Glycosylation Sites: 1 | |||||
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 |
| Hemagglutinin HA2 | B, D, F [auth J] | 176 | Influenza A virus | Mutation(s): 0 Gene Names: HA |  |
UniProt | |||||
Find proteins for A0A6B7HQ27 (Influenza A virus) Explore A0A6B7HQ27 Go to UniProtKB: A0A6B7HQ27 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A6B7HQ27 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose | G [auth E] | 4 |  | N/A | |
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose | H [auth F], J [auth H] | 5 |  | N/A | |
Entity ID: 5 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | I [auth G] | 2 |  | N-Glycosylation | |
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG (Subject of Investigation/LOI) Query on NAG | K [auth A], L [auth I] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.32 Å
- R-Value Free: 0.258
- R-Value Work: 0.216
- R-Value Observed: 0.218
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 103.539 | α = 90 |
| b = 74.76 | β = 96.21 |
| c = 131.101 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2024-12-04 Deposition Author(s): Lin, T.H., Zhu, Y., Wilson, I.A.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | 75N93021C00015 |
Revision History (Full details and data files)
- Version 1.0: 2024-12-04
Type: Initial release - Version 1.1: 2024-12-11
Changes: Structure summary
