6N4V

CryoEM structure of Leviviridae PP7 WT coat protein dimer capsid (PP7PP7-WT)

PDB DOI: https://doi.org/10.2210/pdb6N4V/pdb
EM Map EMD-0344: EMDB EMDataResource

Classification: VIRUS LIKE PARTICLE
Organism(s): Pseudomonas phage PP7
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-11-20 Released: 2019-04-03
Deposition Author(s): Liangjun, Z., Kopylov, M., Potter, C.S., Carragher, B., Finn, M.G.
Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Engineering the PP7 Virus Capsid as a Peptide Display Platform.

Zhao, L., Kopylov, M., Potter, C.S., Carragher, B., Finn, M.G.

(2019) ACS Nano 13: 4443-4454

PubMed: 30912918 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1021/acsnano.8b09683
Primary Citation of Related Structures:
6N4V

PubMed Abstract:
As self-assembling polyvalent nanoscale structures that can tolerate substantial genetic and chemical modification, virus-like particles are useful in a variety of fields. Here we describe the genetic modification and structural characterization of the Leviviridae PP7 capsid protein as a platform for the presentation of functional polypeptides. This particle was shown to tolerate the display of sequences from 1 kDa (a cell penetrating peptide) to 14 kDa (the Fc-binding double Z-domain) on its exterior surface as C-terminal genetic fusions to the coat protein. In addition, a dimeric construct allowed the presentation of exogenous loops between capsid monomers and the simultaneous presentation of two different peptides at different positions on the icosahedral structure. The PP7 particle is thereby significantly more tolerant of these types of polypeptide additions than Qβ and MS2, the other Leviviridae-derived VLPs in common use.

Organizational Affiliation

National Resource for Automated Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center , 89 Convent Avenue , New York , New York 10027 , United States.

Macromolecule Content

Total Structure Weight: 3,377.28 kDa
Atom Count: 236,760
Modelled Residue Count: 30,960
Deposited Residue Count: 30,960
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coat protein	A [auth Af] AA AB AC AD A [auth Af], AA, AB, AC, AD, B [auth A], BA, BB, BC, BD, C [auth B], CA, CB, CC, CD, D [auth C], DA, DB, DC, DD, E [auth D], EA, EB, EC, ED, F [auth E], FA, FB, FC, FD, G [auth F], GA, GB, GC, GD, H [auth G], HA, HB, HC, HD, I [auth H], IA, IB, IC, ID, J [auth I], JA, JB, JC, JD, K [auth J], KA, KB, KC, KD, L [auth K], LA, LB, LC, LD, M [auth L], MA, MB, MC, MD, N [auth M], NA, NB, NC, ND, O [auth N], OA, OB, OC, OD, P [auth O], PA, PB, PC, PD, Q [auth P], QA, QB, QC, R [auth Q], RA, RB, RC, S [auth R], SA, SB, SC, T [auth S], TA, TB, TC, U [auth T], UA, UB, UC, V, VA, VB, VC, W, WA, WB, WC, X, XA, XB, XC, Y, YA, YB, YC, Z, ZA, ZB, ZC	258	Pseudomonas phage PP7	Mutation(s): 0
UniProt
Find proteins for P03630 (Pseudomonas phage PP7) Explore P03630 Go to UniProtKB: P03630
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P03630
Sequence Annotations Expand
Reference Sequence