6RVW

Structure of right-handed protein cage consisting of 24 eleven-membered ring proteins held together by gold (I) bridges.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

An ultra-stable gold-coordinated protein cage displaying reversible assembly.

Malay, A.D.Miyazaki, N.Biela, A.Chakraborti, S.Majsterkiewicz, K.Stupka, I.Kaplan, C.S.Kowalczyk, A.Piette, B.M.A.G.Hochberg, G.K.A.Wu, D.Wrobel, T.P.Fineberg, A.Kushwah, M.S.Kelemen, M.Vavpetic, P.Pelicon, P.Kukura, P.Benesch, J.L.P.Iwasaki, K.Heddle, J.G.

(2019) Nature 569: 438-442

  • DOI: https://doi.org/10.1038/s41586-019-1185-4
  • Primary Citation of Related Structures:  
    6RVV, 6RVW

  • PubMed Abstract: 

    Symmetrical protein cages have evolved to fulfil diverse roles in nature, including compartmentalization and cargo delivery 1 , and have inspired synthetic biologists to create novel protein assemblies via the precise manipulation of protein-protein interfaces. Despite the impressive array of protein cages produced in the laboratory, the design of inducible assemblies remains challenging 2,3 . Here we demonstrate an ultra-stable artificial protein cage, the assembly and disassembly of which can be controlled by metal coordination at the protein-protein interfaces. The addition of a gold (I)-triphenylphosphine compound to a cysteine-substituted, 11-mer protein ring triggers supramolecular self-assembly, which generates monodisperse cage structures with masses greater than 2 MDa. The geometry of these structures is based on the Archimedean snub cube and is, to our knowledge, unprecedented. Cryo-electron microscopy confirms that the assemblies are held together by 120 S-Au i -S staples between the protein oligomers, and exist in two chiral forms. The cage shows extreme chemical and thermal stability, yet it readily disassembles upon exposure to reducing agents. As well as gold, mercury(II) is also found to enable formation of the protein cage. This work establishes an approach for linking protein components into robust, higher-order structures, and expands the design space available for supramolecular assemblies to include previously unexplored geometries.


  • Organizational Affiliation

    Heddle Initiative Research Unit, RIKEN, Saitama, Japan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription attenuation protein MtrB
A [auth AA],
AA [auth CE],
AB [auth EI],
AC [auth HB],
AD [auth JF],
AE [auth LJ],
AF [auth OC],
AG [auth QG],
AH [auth SK],
AI [auth VD],
AJ [auth XH],
B [auth AB],
BA [auth CF],
BB [auth EJ],
BC [auth HC],
BD [auth JG],
BE [auth LK],
BF [auth OD],
BG [auth QH],
BH [auth TA],
BI [auth VE],
BJ [auth XI],
C [auth AC],
CA [auth CG],
CB [auth EK],
CC [auth HD],
CD [auth JH],
CE [auth MA],
CF [auth OE],
CG [auth QI],
CH [auth TB],
CI [auth VF],
CJ [auth XJ],
D [auth AD],
DA [auth CH],
DB [auth FA],
DC [auth HE],
DD [auth JI],
DE [auth MB],
DF [auth OF],
DG [auth QJ],
DH [auth TC],
DI [auth VG],
DJ [auth XK],
E [auth AE],
EA [auth CI],
EB [auth FB],
EC [auth HF],
ED [auth JJ],
EE [auth MC],
EF [auth OG],
EG [auth QK],
EH [auth TD],
EI [auth VH],
F [auth AF],
FA [auth CJ],
FB [auth FC],
FC [auth HG],
FD [auth JK],
FE [auth MD],
FF [auth OH],
FG [auth RA],
FH [auth TE],
FI [auth VI],
G [auth AG],
GA [auth CK],
GB [auth FD],
GC [auth HH],
GD [auth KA],
GE [auth ME],
GF [auth OI],
GG [auth RB],
GH [auth TF],
GI [auth VJ],
H [auth AH],
HA [auth DA],
HB [auth FE],
HC [auth HI],
HD [auth KB],
HE [auth MF],
HF [auth OJ],
HG [auth RC],
HH [auth TG],
HI [auth VK],
I [auth AI],
IA [auth DB],
IB [auth FF],
IC [auth HJ],
ID [auth KC],
IE [auth MG],
IF [auth OK],
IG [auth RD],
IH [auth TH],
II [auth WA],
J [auth AJ],
JA [auth DC],
JB [auth FG],
JC [auth HK],
JD [auth KD],
JE [auth MH],
JF [auth PA],
JG [auth RE],
JH [auth TI],
JI [auth WB],
K [auth AK],
KA [auth DD],
KB [auth FH],
KC [auth IA],
KD [auth KE],
KE [auth MI],
KF [auth PB],
KG [auth RF],
KH [auth TJ],
KI [auth WC],
L [auth BA],
LA [auth DE],
LB [auth FI],
LC [auth IB],
LD [auth KF],
LE [auth MJ],
LF [auth PC],
LG [auth RG],
LH [auth TK],
LI [auth WD],
M [auth BB],
MA [auth DF],
MB [auth FJ],
MC [auth IC],
MD [auth KG],
ME [auth MK],
MF [auth PD],
MG [auth RH],
MH [auth UA],
MI [auth WE],
N [auth BC],
NA [auth DG],
NB [auth FK],
NC [auth ID],
ND [auth KH],
NE [auth NA],
NF [auth PE],
NG [auth RI],
NH [auth UB],
NI [auth WF],
O [auth BD],
OA [auth DH],
OB [auth GA],
OC [auth IE],
OD [auth KI],
OE [auth NB],
OF [auth PF],
OG [auth RJ],
OH [auth UC],
OI [auth WG],
P [auth BE],
PA [auth DI],
PB [auth GB],
PC [auth IF],
PD [auth KJ],
PE [auth NC],
PF [auth PG],
PG [auth RK],
PH [auth UD],
PI [auth WH],
Q [auth BF],
QA [auth DJ],
QB [auth GC],
QC [auth IG],
QD [auth KK],
QE [auth ND],
QF [auth PH],
QG [auth SA],
QH [auth UE],
QI [auth WI],
R [auth BG],
RA [auth DK],
RB [auth GD],
RC [auth IH],
RD [auth LA],
RE [auth NE],
RF [auth PI],
RG [auth SB],
RH [auth UF],
RI [auth WJ],
S [auth BH],
SA [auth EA],
SB [auth GE],
SC [auth II],
SD [auth LB],
SE [auth NF],
SF [auth PJ],
SG [auth SC],
SH [auth UG],
SI [auth WK],
T [auth BI],
TA [auth EB],
TB [auth GF],
TC [auth IJ],
TD [auth LC],
TE [auth NG],
TF [auth PK],
TG [auth SD],
TH [auth UH],
TI [auth XA],
U [auth BJ],
UA [auth EC],
UB [auth GG],
UC [auth IK],
UD [auth LD],
UE [auth NH],
UF [auth QA],
UG [auth SE],
UH [auth UI],
UI [auth XB],
V [auth BK],
VA [auth ED],
VB [auth GH],
VC [auth JA],
VD [auth LE],
VE [auth NI],
VF [auth QB],
VG [auth SF],
VH [auth UJ],
VI [auth XC],
W [auth CA],
WA [auth EE],
WB [auth GI],
WC [auth JB],
WD [auth LF],
WE [auth NJ],
WF [auth QC],
WG [auth SG],
WH [auth UK],
WI [auth XD],
X [auth CB],
XA [auth EF],
XB [auth GJ],
XC [auth JC],
XD [auth LG],
XE [auth NK],
XF [auth QD],
XG [auth SH],
XH [auth VA],
XI [auth XE],
Y [auth CC],
YA [auth EG],
YB [auth GK],
YC [auth JD],
YD [auth LH],
YE [auth OA],
YF [auth QE],
YG [auth SI],
YH [auth VB],
YI [auth XF],
Z [auth CD],
ZA [auth EH],
ZB [auth HA],
ZC [auth JE],
ZD [auth LI],
ZE [auth OB],
ZF [auth QF],
ZG [auth SJ],
ZH [auth VC],
ZI [auth XG]
74Geobacillus stearothermophilusMutation(s): 2 
Gene Names: mtrB
UniProt
Find proteins for Q9X6J6 (Geobacillus stearothermophilus)
Explore Q9X6J6 
Go to UniProtKB:  Q9X6J6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9X6J6
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
AU (Subject of Investigation/LOI)
Query on AU

Download Ideal Coordinates CCD File 
AK [auth CC]
AL [auth FG]
AM [auth JC]
AN [auth PC]
BK [auth CD]
AK [auth CC],
AL [auth FG],
AM [auth JC],
AN [auth PC],
BK [auth CD],
BL [auth FH],
BM [auth JD],
BN [auth PD],
CK [auth CE],
CL [auth FI],
CM [auth JE],
CN [auth PE],
DK [auth CF],
DL [auth FJ],
DM [auth JF],
DN [auth PF],
EJ [auth AA],
EK [auth CI],
EL [auth GC],
EM [auth KC],
EN [auth PG],
FJ [auth AB],
FK [auth CJ],
FL [auth GD],
FM [auth KD],
FN [auth PH],
GJ [auth AC],
GK [auth DA],
GL [auth GG],
GM [auth KE],
GN [auth QG],
HJ [auth AD],
HK [auth DB],
HL [auth GH],
HM [auth KF],
HN [auth QH],
IJ [auth AE],
IK [auth DC],
IL [auth GI],
IM [auth LA],
IN [auth RA],
JJ [auth AF],
JK [auth DD],
JL [auth GJ],
JM [auth LB],
JN [auth RB],
KJ [auth AG],
KK [auth DE],
KL [auth HA],
KM [auth LC],
KN [auth RC],
LJ [auth AH],
LK [auth DF],
LL [auth HB],
LM [auth LD],
LN [auth RD],
MJ [auth AI],
MK [auth DG],
ML [auth HC],
MM [auth LI],
MN [auth SE],
NJ [auth AJ],
NK [auth DH],
NL [auth HD],
NM [auth LJ],
NN [auth SF],
OJ [auth BA],
OK [auth DI],
OL [auth HG],
OM [auth ME],
ON [auth TA],
PJ [auth BB],
PK [auth DJ],
PL [auth HH],
PM [auth MF],
PN [auth TB],
QJ [auth BC],
QK [auth EE],
QL [auth HI],
QM [auth NA],
QN [auth TI],
RJ [auth BD],
RK [auth EF],
RL [auth HJ],
RM [auth NB],
RN [auth TJ],
SJ [auth BE],
SK [auth EG],
SL [auth IA],
SM [auth NC],
SN [auth WI],
TJ [auth BF],
TK [auth EH],
TL [auth IB],
TM [auth ND],
TN [auth WJ],
UJ [auth BG],
UK [auth EI],
UL [auth IE],
UM [auth OE],
VJ [auth BH],
VK [auth EJ],
VL [auth IF],
VM [auth OF],
WJ [auth BI],
WK [auth FA],
WL [auth IG],
WM [auth OG],
XJ [auth BJ],
XK [auth FB],
XL [auth IH],
XM [auth OH],
YJ [auth CA],
YK [auth FE],
YL [auth II],
YM [auth OI],
ZJ [auth CB],
ZK [auth FF],
ZL [auth IJ],
ZM [auth OJ]
GOLD ION
Au
ZBKIUFWVEIBQRT-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Polish National Science CentrePolandNCN 2016/20/W/NZ1/00095
Other governmentPolandFNP Homing/2016-2/20
Japan Society for the Promotion of ScienceJapanNo. 2556023
Other governmentPolandMRPO.05.01.00-12-013/15
Japan Agency for Medical Research and Development (AMED)Japan--

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-12
    Type: Initial release