8ULK | pdb_00008ulk

Prefusion RSV F bound by neutralizing antibody 1G12

• PDB DOI: https://doi.org/10.2210/pdb8ULK/pdb

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Human respiratory syncytial virus A2, Homo sapiens, Respiratory syncytial virus A2
• Expression System: Cricetulus griseus, Homo sapiens
• Mutation(s): No 


• Deposited: 2023-10-16 Released: 2024-11-06 
• Deposition Author(s): Harshbarger, W.D., Andreano, E., Malito, E.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.28 Å
• R-Value Free: 
  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.245 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Starting Model: experimental

Literature

Structural and functional properties of monoclonal and vaccine-induced antibodies targeting epitopes of emerging RSV variants

Xian, Y., Andreano, E., Tian, S., Phung, E., Garbinski, L., Biancucci, M., Lofano, G., Mallett, C.P., Balsaraf, A., Huang, Y., Buricchi, F., Finco, O., Rappuoli, R., Bottomley, M.J., Chandramouli, S., Warter, L., Williams, J., Malito, E., Harshbarger, W.D.

To be published.

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 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 307.24 kDa 
• Atom Count: 20,187 
• Modeled Residue Count: 2,631 
• Deposited Residue Count: 2,805 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F2	A, B, C	72	Human respiratory syncytial virus A2	Mutation(s): 0
UniProt
Find proteins for P03420 (Human respiratory syncytial virus A (strain A2)) Explore P03420  Go to UniProtKB:  P03420

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
1G12 Fab heavy chain	D, F [auth H], H [auth F]	235	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
1G12 Fab light chain	E, G [auth L], I [auth G]	214	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0,Fibritin	J [auth I], K [auth J], L [auth K]	414	Respiratory syncytial virus A2	Mutation(s): 0
UniProt
Find proteins for A0A088S9A7 (Human respiratory syncytial virus MinFLC) Explore A0A088S9A7  Go to UniProtKB:  A0A088S9A7
Find proteins for P10104 (Enterobacteria phage T4) Explore P10104  Go to UniProtKB:  P10104
UniProt Groups	A0A088S9A7P10104

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.28 Å
• R-Value Free:  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.245 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 143.982	α = 90
b = 174.605	β = 90
c = 226.286	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing
PHENIX	refinement
SERGUI	data collection
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-06 
Deposition Author(s): Harshbarger, W.D., Andreano, E., Malito, E.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-11-06
  Type: Initial release