8B3Q | pdb_00008b3q

CryoEM structure of the central filamentous region of the f1 filamentous bacteriophage, consisting of the major capsid protein pVIII

PDB DOI: https://doi.org/10.2210/pdb8B3Q/pdb
EM Map EMD-15833: EMDB EMDataResource

Classification: VIRUS
Organism(s): Enterobacteria phage f1
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2022-09-16 Released: 2023-05-24
Deposition Author(s): Conners, R., McLaren, M., Gold, V.A.M.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.58 Å
Aggregation State: PARTICLE
Reconstruction Method: HELICAL

wwPDB Validation 3D Report Full Report

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

Literature

Cryo-electron microscopy of the f1 filamentous phage reveals insights into viral infection and assembly.

Conners, R., Leon-Quezada, R.I., McLaren, M., Bennett, N.J., Daum, B., Rakonjac, J., Gold, V.A.M.

(2023) Nat Commun 14: 2724-2724

PubMed: 37169795 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41467-023-37915-w
Primary Citation Related Structures:
8B3O, 8B3P, 8B3Q

PubMed Abstract:
Phages are viruses that infect bacteria and dominate every ecosystem on our planet. As well as impacting microbial ecology, physiology and evolution, phages are exploited as tools in molecular biology and biotechnology. This is particularly true for the Ff (f1, fd or M13) phages, which represent a widely distributed group of filamentous viruses. Over nearly five decades, Ffs have seen an extraordinary range of applications, yet the complete structure of the phage capsid and consequently the mechanisms of infection and assembly remain largely mysterious. In this work, we use cryo-electron microscopy and a highly efficient system for production of short Ff-derived nanorods to determine a structure of a filamentous virus including the tips. We show that structure combined with mutagenesis can identify phage domains that are important in bacterial attack and for release of new progeny, allowing new models to be proposed for the phage lifecycle.

Organizational Affiliation

Living Systems Institute, University of Exeter, Stocker Road, Exeter, EX4 4QD, UK.

Macromolecule Content

Total Structure Weight: 390.9 kDa
Atom Count: 25,095
Modeled Residue Count: 3,395
Deposited Residue Count: 3,750
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein G8P	A [auth AAA] AA [auth BeB] AB [auth CjC] B [auth BBB] BA [auth CeC] A [auth AAA], AA [auth BeB], AB [auth CjC], B [auth BBB], BA [auth CeC], BB [auth DjD], C [auth CCC], CA [auth DeD], CB [auth EjE], D [auth DDD], DA [auth EeE], DB [auth AkA], E [auth EEE], EA [auth AfA], EB [auth BkB], F [auth AaA], FA [auth BfB], FB [auth CkC], G [auth BaB], GA [auth CfC], GB [auth DkD], H [auth CaC], HA [auth DfD], HB [auth EkE], I [auth DaD], IA [auth EfE], IB [auth AlA], J [auth EaE], JA [auth AgA], JB [auth BlB], K [auth AbA], KA [auth BgB], KB [auth ClC], L [auth BbB], LA [auth CgC], LB [auth DlD], M [auth CbC], MA [auth DgD], MB [auth ElE], N [auth DbD], NA [auth EgE], NB [auth AmA], O [auth EbE], OA [auth AhA], OB [auth BmB], P [auth AcA], PA [auth BhB], PB [auth CmC], Q [auth BcB], QA [auth ChC], QB [auth DmD], R [auth CcC], RA [auth DhD], RB [auth EmE], S [auth DcD], SA [auth EhE], SB [auth AnA], T [auth EcE], TA [auth AiA], TB [auth BnB], U [auth AdA], UA [auth BiB], UB [auth CnC], V [auth BdB], VA [auth CiC], VB [auth DnD], W [auth CdC], WA [auth DiD], WB [auth EnE], X [auth DdD], XA [auth EiE], Y [auth EdE], YA [auth AjA], Z [auth AeA], ZA [auth BjB]	50	Enterobacteria phage f1	Mutation(s): 1 Gene Names: VIII
UniProt
Find proteins for P69540 (Enterobacteria phage f1) Explore P69540 Go to UniProtKB: P69540
Entity Groups
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UniProt Group	P69540
Sequence Annotations Expand
Reference Sequence