7PE2

Cryo-EM structure of BMV-derived VLP expressed in E. coli (eVLP)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cryo-EM reconstructions of BMV-derived virus-like particles reveal assembly defects in the icosahedral lattice structure.

Ruszkowski, M.Strugala, A.Indyka, P.Tresset, G.Figlerowicz, M.Urbanowicz, A.

(2022) Nanoscale 14: 3224-3233

  • DOI: https://doi.org/10.1039/d1nr05650f
  • Primary Citation of Related Structures:  
    7PE1, 7PE2

  • PubMed Abstract: 

    The increasing interest in virus-like particles (VLPs) has been reflected by the growing number of studies on their assembly and application. However, the formation of complete VLPs is a complex phenomenon, making it difficult to rationally design VLPs with desired features de novo . In this paper, we describe VLPs assembled in vitro from the recombinant capsid protein of brome mosaic virus (BMV). The analysis of VLPs was performed by Cryo-EM reconstructions and allowed us to visualize a few classes of VLPs, giving insight into the VLP self-assembly process. Apart from the mature icosahedral VLP practically identical with native virions, we describe putative VLP intermediates displaying non-icosahedral arrangements of capsomers, proposed to occur before the final disorder-order transition stage of icosahedral VLP assembly. Some of the described VLP classes show a lack of protein shell continuity, possibly resulting from too strong interaction with the cargo (in this case tRNA) with the capsid protein. We believe that our results are a useful prerequisite for the rational design of VLPs in the future and lead the way to the effective production of modified VLPs.


  • Organizational Affiliation

    Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland. aniau@ibch.poznan.pl.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Coat protein
A,
AA [auth BA],
AB [auth BB],
AC [auth BC],
AD [auth BD],
AE [auth BE],
AF [auth BF],
B,
BA [auth CA],
BB [auth CB],
BC [auth CC],
BD [auth CD],
BE [auth CE],
BF [auth CF],
C,
CA [auth DA],
CB [auth DB],
CC [auth DC],
CD [auth DD],
CE [auth DE],
CF [auth DF],
D,
DA [auth EA],
DB [auth EB],
DC [auth EC],
DD [auth ED],
DE [auth EE],
DF [auth EF],
E,
EA [auth FA],
EB [auth FB],
EC [auth FC],
ED [auth FD],
EE [auth FE],
EF [auth FF],
F,
FA [auth GA],
FB [auth GB],
FC [auth GC],
FD [auth GD],
FE [auth GE],
FF [auth GF],
G,
GA [auth HA],
GB [auth HB],
GC [auth HC],
GD [auth HD],
GE [auth HE],
GF [auth HF],
H,
HA [auth IA],
HB [auth IB],
HC [auth IC],
HD [auth ID],
HE [auth IE],
HF [auth IF],
I,
IA [auth JA],
IB [auth JB],
IC [auth JC],
ID [auth JD],
IE [auth JE],
IF [auth JF],
J,
JA [auth KA],
JB [auth KB],
JC [auth KC],
JD [auth KD],
JE [auth KE],
JF [auth KF],
K,
KA [auth LA],
KB [auth LB],
KC [auth LC],
KD [auth LD],
KE [auth LE],
KF [auth LF],
L,
LA [auth MA],
LB [auth MB],
LC [auth MC],
LD [auth MD],
LE [auth ME],
LF [auth MF],
M,
MA [auth NA],
MB [auth NB],
MC [auth NC],
MD [auth ND],
ME [auth NE],
MF [auth NF],
N,
NA [auth OA],
NB [auth OB],
NC [auth OC],
ND [auth OD],
NE [auth OE],
NF [auth OF],
O,
OA [auth PA],
OB [auth PB],
OC [auth PC],
OD [auth PD],
OE [auth PE],
OF [auth PF],
P,
PA [auth QA],
PB [auth QB],
PC [auth QC],
PD [auth QD],
PE [auth QE],
PF [auth QF],
Q,
QA [auth RA],
QB [auth RB],
QC [auth RC],
QD [auth RD],
QE [auth RE],
QF [auth RF],
R,
RA [auth SA],
RB [auth SB],
RC [auth SC],
RD [auth SD],
RE [auth SE],
RF [auth SF],
S,
SA [auth TA],
SB [auth TB],
SC [auth TC],
SD [auth TD],
SE [auth TE],
SF [auth TF],
T,
TA [auth UA],
TB [auth UB],
TC [auth UC],
TD [auth UD],
TE [auth UE],
TF [auth UF],
U [auth V],
UA [auth VA],
UB [auth VB],
UC [auth VC],
UD [auth VD],
UE [auth VE],
UF [auth VF],
V [auth W],
VA [auth WA],
VB [auth WB],
VC [auth WC],
VD [auth WD],
VE [auth WE],
VF [auth WF],
W [auth X],
WA [auth XA],
WB [auth XB],
WC [auth XC],
WD [auth XD],
WE [auth XE],
WF [auth XF],
X [auth Y],
XA [auth YA],
XB [auth YB],
XC [auth YC],
XD [auth YD],
XE [auth YE],
XF [auth YF],
Y [auth Z],
YA [auth ZA],
YB [auth ZB],
YC [auth ZC],
YD [auth ZD],
YE [auth ZE],
Z [auth AA],
ZA [auth AB],
ZB [auth AC],
ZC [auth AD],
ZD [auth AE],
ZE [auth AF]
192Brome mosaic virusMutation(s): 0 
UniProt
Find proteins for Q9QCJ1 (Brome mosaic virus)
Explore Q9QCJ1 
Go to UniProtKB:  Q9QCJ1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9QCJ1
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-02
    Type: Initial release
  • Version 1.1: 2022-03-09
    Changes: Database references
  • Version 1.2: 2024-07-17
    Changes: Data collection, Database references, Refinement description