4XKD
Crystal structure of hemagglutinin from Taiwan (2013) H6N1 influenza virus
- PDB DOI: https://doi.org/10.2210/pdb4XKD/pdb
- Classification: VIRAL PROTEIN
- Organism(s): H6N1 subtype
- Expression System: Trichoplusia ni
- Mutation(s): No
- Deposited: 2015-01-11 Released: 2015-04-01
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.48 Å
- R-Value Free: 0.257
- R-Value Work: 0.207
- R-Value Observed: 0.209
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 |
| Hemagglutinin HA1 chain | 333 | H6N1 subtype | Mutation(s): 0 Gene Names: HA |  | |
UniProt | |||||
Find proteins for A0A0J9X268 (H6N1 subtype) Explore A0A0J9X268 Go to UniProtKB: A0A0J9X268 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0J9X268 | ||||
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 chain | 180 | H6N1 subtype | Mutation(s): 0 Gene Names: HA |  | |
UniProt | |||||
Find proteins for A0A0J9X267 (H6N1 subtype) Explore A0A0J9X267 Go to UniProtKB: A0A0J9X267 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0J9X267 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAG Query on NAG | G [auth A] H [auth A] I [auth D] J [auth E] K [auth E] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.48 Å
- R-Value Free: 0.257
- R-Value Work: 0.207
- R-Value Observed: 0.209
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 184.446 | α = 90 |
| b = 98.963 | β = 126.12 |
| c = 132.863 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data scaling |
| PHENIX | model building |
| HKL-2000 | data reduction |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2015-04-01 Deposition Author(s): Tzarum, N., Zhu, X., Wilson, I.A.
Revision History (Full details and data files)
- Version 1.0: 2015-04-01
Type: Initial release - Version 1.1: 2017-11-22
Changes: Derived calculations, Refinement description, Source and taxonomy - Version 1.2: 2018-10-31
Changes: Data collection, Derived calculations - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary - Version 1.4: 2023-09-27
Changes: Data collection, Database references, Refinement description, Structure summary - Version 1.5: 2024-01-10
Changes: Advisory, Derived calculations
