9I59 | pdb_00009i59

RVFV GnH complexed with RVFV-379 Fab

• PDB DOI: https://doi.org/10.2210/pdb9I59/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Rift Valley fever virus, Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2025-01-27 Released: 2025-11-26 
• Deposition Author(s): Paesen, G.C., Bowden, T.A.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 
  0.251 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.212 (Depositor), 0.212 (DCC) 
• R-Value Observed: 
  0.214 (Depositor) 

Starting Model: experimental

Literature

Structural basis for recognition of Rift Valley fever virus determine neutralization potency Gn protein by a human neutralizing monoclonal antibody encoded by a kappa light chain

Paesen, G.C., Chapman, N.S., Westover, J.L.B., McMillan, C.M., Kuzmina, N.A., Myers, L., Stass, R., Montgomery, J.M., Bukreyev, A., Hartman, A.L., Gowen, B.B., Crowe, J.E., Bowden, T.A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 172.2 kDa 
• Atom Count: 11,339 
• Modeled Residue Count: 1,400 
• Deposited Residue Count: 1,566 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelopment polyprotein	A, B	345	Rift Valley fever virus	Mutation(s): 0
UniProt
Find proteins for A2T080 (Rift valley fever virus) Explore A2T080  Go to UniProtKB:  A2T080

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Heavy chain of Fab	C [auth H], E [auth X]	223	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Light chain of Fab	D [auth L], F [auth Y]	215	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	K [auth L]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL	G [auth A], H, I [auth H], J [auth L], L [auth X], M [auth Y]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free:  0.251 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.212 (Depositor), 0.212 (DCC) 
• R-Value Observed: 0.214 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.09	α = 90
b = 187.37	β = 90
c = 157.88	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-26 
Deposition Author(s): Paesen, G.C., Bowden, T.A.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/V031635/1
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/S007555/1

Revision History  

• Version 1.0: 2025-11-26
  Type: Initial release