9IVR | pdb_00009ivr

Cryo-EM structure of the CHIKV nsP3 peptide in complex with the NTF2L domain of G3BP1 (Conformation II)

• PDB DOI: https://doi.org/10.2210/pdb9IVR/pdb
• EM Map EMD-60933: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Homo sapiens, Chikungunya virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-07-24 Released: 2025-04-09 
• Deposition Author(s): Wang, J., Liu, Y.Z., Lei, J., Wang, K.T.
• Funding Organization(s): Ministry of Science and Technology (MoST, China)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of the CHIKV nsP3 peptide in complex with the NTF2L domain of G3BP1

Liu, Y.Z., Wang, J., Wang, K.T., Lei, J.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Hetero 24-mer - A16B8 Pseudo Symmetry: Dihedral - D2  (Explore in 3D)
Pseudo Stoichiometry: Hetero 24-mer - A16B4C4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 304.92 kDa 
• Atom Count: 19,758 
• Modelled Residue Count: 2,460 
• Deposited Residue Count: 2,688 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ras GTPase-activating protein-binding protein 1	A, B [auth C], C [auth D], D [auth B], G [auth P], H [auth N], I [auth M], J [auth O], M [auth T], N [auth R], O [auth Q], P [auth S], S [auth E], T [auth G], U [auth H], V [auth F]	141	Homo sapiens	Mutation(s): 0  Gene Names: G3BP1, G3BP EC: 3.6.4.12 (PDB Primary Data), 3.6.4.13 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q13283 (Homo sapiens) Explore Q13283  Go to UniProtKB:  Q13283
PHAROS:  Q13283 GTEx:  ENSG00000145907

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyprotein P1234	E [auth L], F [auth I], K [auth V], L [auth U], Q [auth X], R [auth W], W [auth J], X [auth K]	54	Chikungunya virus	Mutation(s): 0
UniProt
Find proteins for A0A0U5KFN5 (Chikungunya virus) Explore A0A0U5KFN5  Go to UniProtKB:  A0A0U5KFN5

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-09 
Deposition Author(s): Wang, J., Liu, Y.Z., Lei, J., Wang, K.T.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2021YFF0702004
Ministry of Science and Technology (MoST, China)	China	2022YFC2303701

Revision History  

• Version 1.0: 2025-04-09
  Type: Initial release