7TUW

LH2-LH3 antenna in anti parallel configuration embedded in a nanodisc


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Elucidating interprotein energy transfer dynamics within the antenna network from purple bacteria.

Wang, D.Fiebig, O.C.Harris, D.Toporik, H.Ji, Y.Chuang, C.Nairat, M.Tong, A.L.Ogren, J.I.Hart, S.M.Cao, J.Sturgis, J.N.Mazor, Y.Schlau-Cohen, G.S.

(2023) Proc Natl Acad Sci U S A 120: e2220477120-e2220477120

  • DOI: https://doi.org/10.1073/pnas.2220477120
  • Primary Citation of Related Structures:  
    7TUW, 7TV3, 8FB9, 8FBB

  • PubMed Abstract: 

    In photosynthesis, absorbed light energy transfers through a network of antenna proteins with near-unity quantum efficiency to reach the reaction center, which initiates the downstream biochemical reactions. While the energy transfer dynamics within individual antenna proteins have been extensively studied over the past decades, the dynamics between the proteins are poorly understood due to the heterogeneous organization of the network. Previously reported timescales averaged over such heterogeneity, obscuring individual interprotein energy transfer steps. Here, we isolated and interrogated interprotein energy transfer by embedding two variants of the primary antenna protein from purple bacteria, light-harvesting complex 2 (LH2), together into a near-native membrane disc, known as a nanodisc. We integrated ultrafast transient absorption spectroscopy, quantum dynamics simulations, and cryogenic electron microscopy to determine interprotein energy transfer timescales. By varying the diameter of the nanodiscs, we replicated a range of distances between the proteins. The closest distance possible between neighboring LH2, which is the most common in native membranes, is 25 Å and resulted in a timescale of 5.7 ps. Larger distances of 28 to 31 Å resulted in timescales of 10 to 14 ps. Corresponding simulations showed that the fast energy transfer steps between closely spaced LH2 increase transport distances by ∼15%. Overall, our results introduce a framework for well-controlled studies of interprotein energy transfer dynamics and suggest that protein pairs serve as the primary pathway for the efficient transport of solar energy.


  • Organizational Affiliation

    Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Light-harvesting protein B800-820 alpha chain57Magnetospirillum molischianumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q7M119 (Magnetospirillum molischianum)
Explore Q7M119 
Go to UniProtKB:  Q7M119
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7M119
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Light-harvesting protein B800-820 beta chain46Magnetospirillum molischianumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q7M158 (Magnetospirillum molischianum)
Explore Q7M158 
Go to UniProtKB:  Q7M158
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UniProt GroupQ7M158
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Light-harvesting protein B-800/850 alpha chain
AA [auth a],
M,
O,
Q,
S,
U,
W,
Y
57Magnetospirillum molischianumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P97253 (Magnetospirillum molischianum)
Explore P97253 
Go to UniProtKB:  P97253
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UniProt GroupP97253
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Light-harvesting protein B-800/850 beta 1 chain
BA [auth b],
N,
P,
R,
T,
V,
X,
Z
46Magnetospirillum molischianumMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P95673 (Magnetospirillum molischianum)
Explore P95673 
Go to UniProtKB:  P95673
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UniProt GroupP95673
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BCL (Subject of Investigation/LOI)
Query on BCL

Download Ideal Coordinates CCD File 
AC [auth W]
BB [auth K]
BC [auth X]
CB [auth K]
DB [auth L]
AC [auth W],
BB [auth K],
BC [auth X],
CB [auth K],
DB [auth L],
DC [auth Y],
EB [auth M],
EC [auth Y],
FB [auth M],
FC [auth Z],
GA [auth A],
HA [auth A],
HB [auth N],
HC [auth a],
IC [auth a],
JA [auth B],
JB [auth O],
JC [auth b],
KB [auth O],
LA [auth D],
LB [auth P],
LC [auth c],
MA [auth D],
MC [auth c],
NA [auth E],
NB [auth Q],
NC [auth d],
OA [auth C],
OB [auth Q],
PA [auth C],
PB [auth R],
PC [auth e],
QC [auth e],
RA [auth F],
RB [auth S],
RC [auth f],
SB [auth S],
TA [auth G],
TB [auth T],
UA [auth G],
VA [auth H],
VB [auth U],
WB [auth U],
XA [auth I],
XB [auth V],
YA [auth I],
ZA [auth J],
ZB [auth W]
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-AGGZHOMASA-M
LYC (Subject of Investigation/LOI)
Query on LYC

Download Ideal Coordinates CCD File 
AB [auth K]
CC [auth Y]
GB [auth M]
GC [auth a]
IA [auth A]
AB [auth K],
CC [auth Y],
GB [auth M],
GC [auth a],
IA [auth A],
IB [auth O],
KA [auth D],
KC [auth c],
MB [auth Q],
OC [auth e],
QA [auth C],
QB [auth S],
SA [auth G],
UB [auth U],
WA [auth I],
YB [auth W]
LYCOPENE
C40 H56
OAIJSZIZWZSQBC-GYZMGTAESA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesDE-SC0018097
National Science Foundation (NSF, United States)United StatesCHE 1800301
National Science Foundation (NSF, United States)United StatesCHE 1836913
National Science Foundation (NSF, United States)United States--
National Science Foundation (NSF, United States)United States2034021

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-15
    Type: Initial release
  • Version 1.1: 2023-07-19
    Changes: Database references