8JKH | pdb_00008jkh

CryoEM structure of sNS1 complexed with Fab 4B8

• PDB DOI: https://doi.org/10.2210/pdb8JKH/pdb
• EM Map EMD-36372: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Zika virus, Homo sapiens
• Expression System: Trichoplusia ni, Homo sapiens
• Mutation(s): No 


• Deposited: 2023-06-01 Released: 2024-12-04 
• Deposition Author(s): Chen, Q., Pan, Q.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.64 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural insights into the distinct protective mechanisms of human antibodies targeting ZIKV NS1

Pan, Q., Xing, X., Yu, J., Chen, Q., Jiao, H., Zhang, W., Wen, Y., Gao, M., Zhao, W., Yu, L., Hu, H.

(2024) Hlife 2: 527-541

• DOI: https://doi.org/10.1016/j.hlife.2024.05.003

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A4B4C4 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Hetero 12-mer - A8B4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 259.54 kDa 
• Atom Count: 17,603 
• Modeled Residue Count: 2,270 
• Deposited Residue Count: 2,328 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS1	A, B [auth a], G [auth B], H [auth b]	358	Zika virus	Mutation(s): 0
UniProt
Find proteins for A0A1B3ZSF4 (Zika virus) Explore A0A1B3ZSF4  Go to UniProtKB:  A0A1B3ZSF4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
the heavy chain of antibody 4B8	C [auth h], E [auth H], I [auth m], K [auth M]	117	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
the light chain of antibody 4B8	D [auth l], F [auth L], J [auth n], L [auth N]	107	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.64 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.18.2_3874:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-04 
Deposition Author(s): Chen, Q., Pan, Q.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32100963

Revision History  

• Version 1.0: 2024-12-04
  Type: Initial release