7A4G

Aquifex aeolicus lumazine synthase-derived nucleocapsid variant NC-1 (180-mer)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 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

Evolution of a virus-like architecture and packaging mechanism in a repurposed bacterial protein.

Tetter, S.Terasaka, N.Steinauer, A.Bingham, R.J.Clark, S.Scott, A.J.P.Patel, N.Leibundgut, M.Wroblewski, E.Ban, N.Stockley, P.G.Twarock, R.Hilvert, D.

(2021) Science 372: 1220-1224

  • DOI: https://doi.org/10.1126/science.abg2822
  • Primary Citation of Related Structures:  
    7A4F, 7A4G, 7A4H, 7A4I, 7A4J

  • PubMed Abstract: 

    Viruses are ubiquitous pathogens of global impact. Prompted by the hypothesis that their earliest progenitors recruited host proteins for virion formation, we have used stringent laboratory evolution to convert a bacterial enzyme that lacks affinity for nucleic acids into an artificial nucleocapsid that efficiently packages and protects multiple copies of its own encoding messenger RNA. Revealing remarkable convergence on the molecular hallmarks of natural viruses, the accompanying changes reorganized the protein building blocks into an interlaced 240-subunit icosahedral capsid that is impermeable to nucleases, and emergence of a robust RNA stem-loop packaging cassette ensured high encapsidation yields and specificity. In addition to evincing a plausible evolutionary pathway for primordial viruses, these findings highlight practical strategies for developing nonviral carriers for diverse vaccine and delivery applications.


  • Organizational Affiliation

    Departments of Mathematics and Biology, University of York, York YO10 5DD, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Antitermination protein N,6,7-dimethyl-8-ribityllumazine synthase,6,7-dimethyl-8-ribityllumazine synthase
A [auth AA],
AA [auth BL],
AB [auth DH],
AC [auth FD],
AD [auth GO],
AE [auth IK],
AF [auth KG],
B [auth AB],
BA [auth BM],
BB [auth DI],
BC [auth FE],
BD [auth HA],
BE [auth IL],
BF [auth KH],
C [auth AC],
CA [auth BN],
CB [auth DJ],
CC [auth FF],
CD [auth HB],
CE [auth IM],
CF [auth KI],
D [auth AD],
DA [auth BO],
DB [auth DK],
DC [auth FG],
DD [auth HC],
DE [auth IN],
DF [auth KJ],
E [auth AE],
EA [auth CA],
EB [auth DL],
EC [auth FH],
ED [auth HD],
EE [auth IO],
EF [auth KK],
F [auth AF],
FA [auth CB],
FB [auth DM],
FC [auth FI],
FD [auth HE],
FE [auth JA],
FF [auth KL],
G [auth AG],
GA [auth CC],
GB [auth DN],
GC [auth FJ],
GD [auth HF],
GE [auth JB],
GF [auth KM],
H [auth AH],
HA [auth CD],
HB [auth DO],
HC [auth FK],
HD [auth HG],
HE [auth JC],
HF [auth KN],
I [auth AI],
IA [auth CE],
IB [auth EA],
IC [auth FL],
ID [auth HH],
IE [auth JD],
IF [auth KO],
J [auth AJ],
JA [auth CF],
JB [auth EB],
JC [auth FM],
JD [auth HI],
JE,
JF [auth LA],
K [auth AK],
KA [auth CG],
KB [auth EC],
KC [auth FN],
KD [auth HJ],
KE [auth JF],
KF [auth LB],
L [auth AL],
LA [auth CH],
LB [auth ED],
LC [auth FO],
LD [auth HK],
LE [auth JG],
LF [auth LC],
M [auth AM],
MA [auth CI],
MB [auth EE],
MC [auth GA],
MD [auth HL],
ME [auth JH],
MF [auth LD],
N [auth AN],
NA [auth CJ],
NB [auth EF],
NC [auth GB],
ND [auth HM],
NE [auth JI],
NF [auth LE],
O [auth AO],
OA [auth CK],
OB [auth EG],
OC [auth GC],
OD [auth HN],
OE [auth JJ],
OF [auth LF],
P [auth BA],
PA [auth CL],
PB [auth EH],
PC [auth GD],
PD [auth HO],
PE [auth JK],
PF [auth LG],
Q [auth BB],
QA [auth CM],
QB [auth EI],
QC [auth GE],
QD [auth IA],
QE [auth JL],
QF [auth LH],
R [auth BC],
RA [auth CN],
RB [auth EJ],
RC [auth GF],
RD [auth IB],
RE [auth JM],
RF [auth LI],
S [auth BD],
SA [auth CO],
SB [auth EK],
SC [auth GG],
SD [auth IC],
SE [auth JN],
SF [auth LJ],
T [auth BE],
TA [auth DA],
TB [auth EL],
TC [auth GH],
TD [auth ID],
TE [auth JO],
TF [auth LK],
U [auth BF],
UA [auth DB],
UB [auth EM],
UC [auth GI],
UD [auth IE],
UE [auth KA],
UF [auth LL],
V [auth BG],
VA [auth DC],
VB [auth EN],
VC [auth GJ],
VD [auth IF],
VE [auth KB],
VF [auth LM],
W [auth BH],
WA [auth DD],
WB [auth EO],
WC [auth GK],
WD [auth IG],
WE [auth KC],
WF [auth LN],
X [auth BI],
XA [auth DE],
XB [auth FA],
XC [auth GL],
XD [auth IH],
XE [auth KD],
XF [auth LO],
Y [auth BJ],
YA [auth DF],
YB [auth FB],
YC [auth GM],
YD [auth II],
YE [auth KE],
Z [auth BK],
ZA [auth DG],
ZB [auth FC],
ZC [auth GN],
ZD [auth IJ],
ZE [auth KF]
197Lambdavirus lambdaAquifex aeolicus VF5Mutation(s): 1 
Gene Names: Nlambdap49ribHaq_132
EC: 2.5.1.78
UniProt
Find proteins for O66529 (Aquifex aeolicus (strain VF5))
Explore O66529 
Go to UniProtKB:  O66529
Find proteins for P03045 (Escherichia phage lambda)
Explore P03045 
Go to UniProtKB:  P03045
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP03045O66529
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0
MODEL REFINEMENTPHENIX1.18

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)ERC-AdG-2012-321295

Revision History  (Full details and data files)

  • Version 1.0: 2021-06-02
    Type: Initial release
  • Version 1.1: 2021-06-16
    Changes: Database references
  • Version 1.2: 2021-06-23
    Changes: Database references