9GNP | pdb_00009gnp

SFX structure of Cydia pomonella granulovirus using aerosol sample injection

PDB DOI: https://doi.org/10.2210/pdb9GNP/pdb

Classification: VIRAL PROTEIN
Organism(s): Cydia pomonella granulovirus
Mutation(s): No

Deposited: 2024-09-03 Released: 2025-09-17
Deposition Author(s): Koua, F.H., Kim, Y., Kim, C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.235 (Depositor), 0.229 (DCC)
R-Value Work:
0.178 (Depositor), 0.179 (DCC)
R-Value Observed:
0.184 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

SFX structure of Cydia pomonella granulovirus using aerosol sample injection

Koua, F.H.

To be published.

Macromolecule Content

Total Structure Weight: 28.78 kDa
Atom Count: 2,039
Modeled Residue Count: 243
Deposited Residue Count: 243
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Granulin	A	243	Cydia pomonella granulovirus	Mutation(s): 0
UniProt
Find proteins for X4ZEF4 (Cydia pomonella granulosis virus) Explore X4ZEF4 Go to UniProtKB: X4ZEF4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	X4ZEF4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.235 (Depositor), 0.229 (DCC)
R-Value Work: 0.178 (Depositor), 0.179 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.13	α = 90
b = 100.13	β = 90
c = 100.13	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-09-17

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-09-17
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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.