9RKQ | pdb_00009rkq

Agrobacterium phage 7-7-1 portal

PDB DOI: https://doi.org/10.2210/pdb9RKQ/pdb
EM Map EMD-54017: EMDB EMDataResource

Classification: VIRUS
Organism(s): Agrobacterium phage 7-7-1
Mutation(s): No

Deposited: 2025-06-14 Released: 2025-12-10
Deposition Author(s): Noteborn, W.E.M., Hoeksma, T., Briegel, A.
Funding Organization(s): Netherlands Organisation for Scientific Research (NWO)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.21 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Using cryogenic electron micrography methods to gain insight into structure and initial host attachment of the fagellotrophic bacteriophage 7-7-1

Noteborn, W.E.M., Hoeksma, T., Briegel, A.

To be published.

Macromolecule Content

Total Structure Weight: 546.32 kDa
Atom Count: 36,084
Modeled Residue Count: 4,680
Deposited Residue Count: 4,980
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Portal protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	415	Agrobacterium phage 7-7-1	Mutation(s): 0
UniProt
Find proteins for J7F8Z5 (Agrobacterium phage 7-7-1) Explore J7F8Z5 Go to UniProtKB: J7F8Z5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	J7F8Z5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.21 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-12-10

Deposition Author(s):

Noteborn, W.E.M.

Funding Organization	Location	Grant Number
Netherlands Organisation for Scientific Research (NWO)	Netherlands	184.034.014

Revision History (Full details and data files)

Version 1.0: 2025-12-10
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.