9CGI

Cryo-EM structure of the Nipah Virus polymerase (L) protein in complex with the tetrameric phosphoprotein (P)

• PDB DOI: https://doi.org/10.2210/pdb9CGI/pdb
• EM Map EMD-45580: EMDB EMDataResource

• Classification: TRANSFERASE, VIRAL PROTEIN
• Organism(s): Henipavirus nipahense
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2024-06-29 Released: 2024-09-18 
• Deposition Author(s): Liu, B., Yang, G., Wang, D.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.92 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of the Nipah virus polymerase phosphoprotein complex.

Yang, G., Wang, D., Liu, B.

(2024) Nat Commun 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A3B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 571.13 kDa 
• Atom Count: 14,751 
• Modelled Residue Count: 1,839 
• Deposited Residue Count: 5,080 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase L	A	2,244	Henipavirus nipahense	Mutation(s): 0  EC: 2.7.7.48 (PDB Primary Data), 3.6.1 (PDB Primary Data), 2.7.7.88 (PDB Primary Data), 2.1.1.375 (PDB Primary Data)
UniProt
Find proteins for Q997F0 (Nipah virus) Explore Q997F0  Go to UniProtKB:  Q997F0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoprotein	B, C, D, E	709	Henipavirus nipahense	Mutation(s): 0  Gene Names: P/V/C
UniProt
Find proteins for Q9IK91 (Nipah virus) Explore Q9IK91  Go to UniProtKB:  Q9IK91

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.92 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21_5207:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-18 
Deposition Author(s): Liu, B., Yang, G., Wang, D.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-09-18
  Type: Initial release