9YF9 | pdb_00009yf9

N4 Empty Particle Portal

PDB DOI: https://doi.org/10.2210/pdb9YF9/pdb
EM Map EMD-72881: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Escherichia phage N4
Mutation(s): No

Deposited: 2025-09-25 Released: 2026-06-10
Deposition Author(s): Bellis, N.F., Cingolani, G.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9YF9

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

Literature

Architecture of the giant RNA polymerase ejected from the coliphage N4 Capsid

Bellis, N.F., Lokareddy, R.K., Kizziah, J.L., Cooper, S.L., Schneider, D.A., Forti, F., Briani, F., Cingolani, G.

To be published.

Macromolecule Content

Total Structure Weight: 1,027.71 kDa
Atom Count: 61,176
Modeled Residue Count: 7,704
Deposited Residue Count: 9,156
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable portal protein	A [auth PA] B [auth PB] C [auth PC] D [auth PD] E [auth PE] A [auth PA], B [auth PB], C [auth PC], D [auth PD], E [auth PE], F [auth PF], G [auth PG], H [auth PH], I [auth PI], J [auth PJ], K [auth PK], L [auth PL]	763	Escherichia phage N4	Mutation(s): 0
UniProt
Find proteins for A0MZE1 (Enterobacteria phage N4) Explore A0MZE1 Go to UniProtKB: A0MZE1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0MZE1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.24 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286:
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-06-10

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-06-10
Type: Initial release

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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.