8EB7 | pdb_00008eb7

Cryo-EM structure of the in-situ gp4-gp10-gp9N from bacteriophage P22

PDB DOI: https://doi.org/10.2210/pdb8EB7/pdb
EM Map EMD-27793: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Salmonella phage P22
Mutation(s): No

Deposited: 2022-08-30 Released: 2023-09-06
Deposition Author(s): Wang, C., Liu, J., Molineux, I.J.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8EB7

This is version 1.1 of the entry. See complete history.

Literature

In-situ structure of tail machine reveals mechanistic insights into P22 assembly

Wang, C., Liu, J., Molineux, I.J.

To be published.

Macromolecule Content

Total Structure Weight: 729.06 kDa
Atom Count: 51,240
Modeled Residue Count: 6,618
Deposited Residue Count: 6,624
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tail spike protein	A [auth 0] AA [auth Z] B [auth A] BA [auth a] C [auth B] A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	111	Salmonella phage P22	Mutation(s): 0 EC: 3.2.1
UniProt
Find proteins for P12528 (Salmonella phage P22) Explore P12528 Go to UniProtKB: P12528
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P12528
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidoglycan hydrolase gp4	F [auth E] H [auth G] I [auth H] J [auth I] K [auth J] F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	150	Salmonella phage P22	Mutation(s): 0
UniProt
Find proteins for P26746 (Salmonella phage P22) Explore P26746 Go to UniProtKB: P26746
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26746
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Packaged DNA stabilization protein gp10	S [auth R] T [auth S] U [auth T] V [auth U] W [auth V] S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], X [auth W]	471	Salmonella phage P22	Mutation(s): 0
UniProt
Find proteins for P26749 (Salmonella phage P22) Explore P26749 Go to UniProtKB: P26749
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26749
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-09-06

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: 2023-09-06
Type: Initial release
Version 1.1: 2025-05-14
Changes: Data collection, Structure summary

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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.