3ZTN

STRUCTURE OF INFLUENZA A NEUTRALIZING ANTIBODY SELECTED FROM CULTURES OF SINGLE HUMAN PLASMA CELLS IN COMPLEX WITH HUMAN H1 INFLUENZA HAEMAGGLUTININ.

• PDB DOI: https://doi.org/10.2210/pdb3ZTN/pdb

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Influenza A virus (A/California/04/2009(H1N1)), Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2011-07-12 Released: 2011-08-10 
• Deposition Author(s): Hubbard, P.A., Ritchie, A.J., Corti, D., Voss, J.E., Gamblin, S.J., Codoni, G., Macagno, A., Jarrossay, D., Pinna, D., Minola, A., Vanzetta, F., Silacci, C., Fernandez-Rodriguez, B.M., Agatic, G., Giacchetto-Sasselli, I., Vachieri, S.G., Sallusto, F., Collins, P.J., Haire, L.F., Temperton, N., Langedijk, J.P.M., Skehel, J.J., Lanzavecchia, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.289 
• R-Value Work: 0.214 
• R-Value Observed: 0.218 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A3B3C3D3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 12-mer - A6B3C3 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 107.64 kDa 
• Atom Count: 6,361 
• Modelled Residue Count: 823 
• Deposited Residue Count: 947 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HAEMAGGLUTININ	A	327	Influenza A virus (A/California/04/2009(H1N1))	Mutation(s): 0
UniProt
Find proteins for C3W5S1 (Influenza A virus (strain swl A/California/04/2009 H1N1)) Explore C3W5S1  Go to UniProtKB:  C3W5S1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HAEMAGGLUTININ	B	176	Influenza A virus (A/California/04/2009(H1N1))	Mutation(s): 0
UniProt
Find proteins for C3W5S1 (Influenza A virus (strain swl A/California/04/2009 H1N1)) Explore C3W5S1  Go to UniProtKB:  C3W5S1

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6V3 ANTIBODY LIGHT CHAIN	C [auth H]	226	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
FI6V3 ANTIBODY LIGHT CHAIN	D [auth L]	218	Homo sapiens	Mutation(s): 0

Oligosaccharides

Help

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	E [auth C], G [auth E]	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Entity ID: 6
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	F [auth D]	3		N/A
Glycosylation Resources
GlyTouCan:  G15407YE GlyCosmos:  G15407YE GlyGen:  G15407YE

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	H [auth A], I [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	J [auth A], K [auth A], L [auth A], M [auth A], O [auth L]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	N [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.289 
• R-Value Work: 0.214 
• R-Value Observed: 0.218 
• Space Group: P 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 206.1	α = 90
b = 206.1	β = 90
c = 206.1	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-08-10 
Deposition Author(s): Hubbard, P.A., Ritchie, A.J., Corti, D., Voss, J.E., Gamblin, S.J., Codoni, G., Macagno, A., Jarrossay, D., Pinna, D., Minola, A., Vanzetta, F., Silacci, C., Fernandez-Rodriguez, B.M., Agatic, G., Giacchetto-Sasselli, I., Vachieri, S.G., Sallusto, F., Collins, P.J., Haire, L.F., Temperton, N., Langedijk, J.P.M., Skehel, J.J., Lanzavecchia, A.

Revision History  

• Version 1.0: 2011-08-10
  Type: Initial release
  
• Version 1.1: 2011-08-24
  Changes: Database references, Source and taxonomy
• Version 1.2: 2017-07-12
  Changes: Advisory
• Version 1.3: 2019-02-20
  Changes: Advisory, Data collection, Derived calculations
• Version 1.4: 2019-07-10
  Changes: Data collection
• Version 1.5: 2020-03-04
  Changes: Data collection, Derived calculations, Other
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-12-20
  Changes: Data collection, Database references, Refinement description, Structure summary