9NCF | pdb_00009ncf

Icosahedral capsid assembly of phage JohannRWettstein (Bas63)

PDB DOI: https://doi.org/10.2210/pdb9NCF/pdb
EM Map EMD-49251: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Escherichia phage JohannRWettstein
Mutation(s): No

Deposited: 2025-02-16 Released: 2025-11-19
Deposition Author(s): Hodgkinson-Bean, J.
Funding Organization(s): Ministry of Agriculture, Forestry and Fisheries (MAFF), Japan Society for the Promotion of Science (JSPS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.37 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9NCF

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

Literature

Icosahedral capsid assembly of phage JohannRWettstein (Bas63)

Hodgkinson-Bean, J., Ayala, R., McJarrow-Keller, K., Cassin, L., Rutter, G.L., Crowe, A.J.M., Wolf, M., Bostina, M.

To be published.

Macromolecule Content

Total Structure Weight: 544.86 kDa
Atom Count: 35,114
Modeled Residue Count: 4,521
Deposited Residue Count: 4,897
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A, B, C, D, E A, B, C, D, E, F, G, H, I	368	Escherichia phage JohannRWettstein	Mutation(s): 0
UniProt
Find proteins for A0AAE8B2A4 (Escherichia phage JohannRWettstein) Explore A0AAE8B2A4 Go to UniProtKB: A0AAE8B2A4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AAE8B2A4
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Head stabilization/decoration protein	J, K, L, M, N J, K, L, M, N, O, P, Q, R	125	Escherichia phage JohannRWettstein	Mutation(s): 0
UniProt
Find proteins for A0AAE8B0J2 (Escherichia phage JohannRWettstein) Explore A0AAE8B0J2 Go to UniProtKB: A0AAE8B0J2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AAE8B0J2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunoglobulin-like domain protein	S	460	Escherichia phage JohannRWettstein	Mutation(s): 0
UniProt
Find proteins for A0AAE7VUZ0 (Escherichia phage JohannRWettstein) Explore A0AAE7VUZ0 Go to UniProtKB: A0AAE7VUZ0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AAE7VUZ0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.37 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-11-19

Deposition Author(s):

Hodgkinson-Bean, J.

Funding Organization	Location	Grant Number
Ministry of Agriculture, Forestry and Fisheries (MAFF)	Japan	GD0696J004
Japan Society for the Promotion of Science (JSPS)	Japan	21K20645

Revision History (Full details and data files)

Version 1.0: 2025-11-19
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.