4D00
Haemagglutinin of H10N8 Influenza Virus Isolated from Humans in Complex with Human Receptor Analogue 6'SLN
- PDB DOI: https://doi.org/10.2210/pdb4D00/pdb
- Classification: VIRAL PROTEIN
- Organism(s): unidentified influenza virus
- Expression System: Spodoptera frugiperda
- Mutation(s): No 
- Deposited: 2014-04-23 Released: 2014-06-11 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.235 
- R-Value Work: 0.209 
- R-Value Observed: 0.210 
This is version 2.0 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
HAEMAGGLUTININ HA1 | 326 | unidentified influenza virus | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q0A448 (Influenza A virus (strain A/Duck/Germany/1949 H10N7)) Explore Q0A448  Go to UniProtKB:  Q0A448 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q0A448 | ||||
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 |
HAEMAGGLUTININ HA1 | 183 | unidentified influenza virus | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for P12581 (Influenza A virus (strain A/Chicken/Germany/n/1949 H10N7)) Explore P12581  Go to UniProtKB:  P12581 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P12581 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | M [auth A] N [auth A] Q [auth C] R [auth C] T [auth E] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
NI Query on NI | O [auth A], P [auth B], S [auth D] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 3 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900046 Query on PRD_900046 | G, I, K | 6'-sialyl-N-acetyllactosamine | Oligosaccharide / Glycan component |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.235 
- R-Value Work: 0.209 
- R-Value Observed: 0.210 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 90.601 | α = 90 |
b = 183.169 | β = 90 |
c = 192.145 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
DENZO | data reduction |
SCALEPACK | data scaling |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2014-06-11  Deposition Author(s): Xiong, X., Haire, L.F., Vachieri, S.G., Collins, P.J., Walker, P.A., Martin, S.R., Zhang, Y., McCauley, J.W., Gamblin, S.J., Skehel, J.J.
Revision History (Full details and data files)
- Version 1.0: 2014-06-11
Type: Initial release - Version 1.1: 2014-07-30
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Other, Structure summary