8G2K

Structure of the H3 hemagglutinin of A/California/7/2004

• PDB DOI: https://doi.org/10.2210/pdb8G2K/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Alphainfluenzavirus influenzae
• Mutation(s): No 


• Deposited: 2023-02-05 Released: 2024-05-15 
• Deposition Author(s): Venkatramani, L., Mooers, B.H.M., Air, G.M.
• Funding Organization(s): National Institutes of Health/National Institute on Aging (NIH/NIA), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.235 
• R-Value Work: 0.209 
• R-Value Observed: 0.211 

Starting Model: experimental

Literature

Structure of the H3 hemagglutinin of A/California/7/2004

Venkatramani, L., Mooers, B.H.M., Air, G.M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 57.85 kDa 
• Atom Count: 4,177 
• Modelled Residue Count: 491 
• Deposited Residue Count: 491 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	A	318	Alphainfluenzavirus influenzae	Mutation(s): 0
UniProt
Find proteins for H9XN76 (Influenza A virus) Explore H9XN76  Go to UniProtKB:  H9XN76
Glycosylation
Glycosylation Sites: 7

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	B	173	Alphainfluenzavirus influenzae	Mutation(s): 0
UniProt
Find proteins for A4GXQ1 (Influenza A virus) Explore A4GXQ1  Go to UniProtKB:  A4GXQ1
Glycosylation
Glycosylation Sites: 1

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, E, F	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G07375KG GlyCosmos:  G07375KG GlyGen:  G07375KG

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	D	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G52260VY GlyCosmos:  G52260VY GlyGen:  G52260VY

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	G [auth A], H [auth A], I [auth A], J [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.235 
• R-Value Work: 0.209 
• R-Value Observed: 0.211 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.199	α = 90
b = 101.199	β = 90
c = 384.462	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-15 
Deposition Author(s): Venkatramani, L., Mooers, B.H.M., Air, G.M.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	NIH 2P20GM103640
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	P30GM145423
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	P30 CA225520

Revision History  

• Version 1.0: 2024-05-15
  
• Version 2.0: 2024-10-02
  Type: Coordinate replacement
  Reason: Chirality error
  Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Derived calculations, Non-polymer description, Refinement description, Structure summary