9GG2

Structure of IPNV L5 capsid

PDB DOI: https://doi.org/10.2210/pdb9GG2/pdb
EM Map EMD-51321: EMDB EMDataResource

Classification: VIRUS
Organism(s): Infectious pancreatic necrosis virus
Mutation(s): No

Deposited: 2024-08-13 Released: 2025-01-08
Deposition Author(s): Munke, A., Gamil, A., Mikalsen, A., Wang, H., Evensen, O., Okamoto, K.
Funding Organization(s): Swedish Research Council, Norwegian Research Council

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structure of IPNV L5 capsid

Munke, A., Gamil, A., Mikalsen, A., Wang, H., Evensen, O., Okamoto, K.

To be published.

Macromolecule Content

Total Structure Weight: 724.42 kDa
Atom Count: 42,492
Modelled Residue Count: 5,500
Deposited Residue Count: 6,604
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Structural polyprotein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M	508	Infectious pancreatic necrosis virus	Mutation(s): 0 EC: 3.4.21
UniProt
Find proteins for A0A346FTX9 (Infectious pancreatic necrosis virus) Explore A0A346FTX9 Go to UniProtKB: A0A346FTX9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A346FTX9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.3.1
MODEL REFINEMENT	PHENIX	1.20.1

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2025-01-08

Deposition Author(s):

Funding Organization	Location	Grant Number
Swedish Research Council	Sweden	2018-03387
Swedish Research Council	Sweden	2023-01857
Swedish Research Council	Sweden	2022-00236
Swedish Research Council	Sweden	2018-00421
Swedish Research Council	Sweden	2022-02347
Norwegian Research Council	Norway	324266

Revision History (Full details and data files)

Version 1.0: 2025-01-08
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.