5VJL
Crystal structure of H7 hemagglutinin mutant (V186K, K193T, G228S) from the influenza virus A/Shanghai/2/2013 (H7N9) with LSTc
- PDB DOI: https://doi.org/10.2210/pdb5VJL/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Influenza A virus (A/Shanghai/02/2013(H7N9))
- Expression System: Trichoplusia ni
- Mutation(s): Yes 
- Deposited: 2017-04-19 Released: 2017-05-24 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.277 
- R-Value Work: 0.218 
- R-Value Observed: 0.221 
This is version 1.4 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 |
Hemagglutinin HA1 | 325 | Influenza A virus (A/Shanghai/02/2013(H7N9)) | Mutation(s): 3  Gene Names: HA | ||
UniProt | |||||
Find proteins for R4NN21 (Influenza A virus) Explore R4NN21  Go to UniProtKB:  R4NN21 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | R4NN21 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Hemagglutinin HA2 | 183 | Influenza A virus (A/Shanghai/02/2013(H7N9)) | Mutation(s): 0  Gene Names: HA | ||
UniProt | |||||
Find proteins for R4NN21 (Influenza A virus) Explore R4NN21  Go to UniProtKB:  R4NN21 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | R4NN21 | ||||
Sequence AnnotationsExpand | |||||
|
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SIA Query on SIA | C [auth A] | N-acetyl-alpha-neuraminic acid C11 H19 N O9 SQVRNKJHWKZAKO-YRMXFSIDSA-N | |||
NAG Query on NAG | E [auth A], F [auth A], G [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
MOH Query on MOH | D [auth A] | METHANOL C H4 O OKKJLVBELUTLKV-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.277 
- R-Value Work: 0.218 
- R-Value Observed: 0.221 
- Space Group: H 3 2
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 116.375 | α = 90 |
b = 116.375 | β = 90 |
c = 296.008 | γ = 120 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2017-05-24  Deposition Author(s): Zhu, X., Wilson, I.A.
Revision History (Full details and data files)
- Version 1.0: 2017-05-24
Type: Initial release - Version 1.1: 2017-05-31
Changes: Data collection - Version 1.2: 2017-06-28
Changes: Database references - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2023-10-04
Changes: Data collection, Database references, Refinement description, Structure summary