7Z6Q

Cryo-EM structure of the whole photosynthetic complex from the green sulfur bacteria


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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Literature

Cryo-EM structure of the whole photosynthetic reaction center apparatus from the green sulfur bacterium Chlorobaculum tepidum.

Xie, H.Lyratzakis, A.Khera, R.Koutantou, M.Welsch, S.Michel, H.Tsiotis, G.

(2023) Proc Natl Acad Sci U S A 120: e2216734120-e2216734120

  • DOI: https://doi.org/10.1073/pnas.2216734120
  • Primary Citation of Related Structures:  
    7Z6Q

  • PubMed Abstract: 

    Light energy absorption and transfer are very important processes in photosynthesis. In green sulfur bacteria light is absorbed primarily by the chlorosomes and its energy is transferred via the Fenna-Matthews-Olson (FMO) proteins to a homodimeric reaction center (RC). Here, we report the cryogenic electron microscopic structure of the intact FMO-RC apparatus from Chlorobaculum tepidum at 2.5 Å resolution. The FMO-RC apparatus presents an asymmetric architecture and contains two FMO trimers that show different interaction patterns with the RC core. Furthermore, the two permanently bound transmembrane subunits PscC, which donate electrons to the special pair, interact only with the two large PscA subunits. This structure fills an important gap in our understanding of the transfer of energy from antenna to the electron transport chain of this RC and the transfer of electrons from reduced sulfur compounds to the special pair.


  • Organizational Affiliation

    Department of Molecular Membrane Biology, Max Planck Institute of Biophysics, Frankfurt am Main D-60438, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem P840 reaction center, large subunitA,
K [auth a]
731Chlorobaculum tepidum TLSMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q8KAY0 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
Explore Q8KAY0 
Go to UniProtKB:  Q8KAY0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8KAY0
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem P840 reaction center iron-sulfur protein231Chlorobaculum tepidum TLSMutation(s): 0 
UniProt
Find proteins for Q8KAY1 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
Explore Q8KAY1 
Go to UniProtKB:  Q8KAY1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8KAY1
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome cC,
L [auth c]
206Chlorobaculum tepidum TLSMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O07091 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
Explore O07091 
Go to UniProtKB:  O07091
Entity Groups  
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UniProt GroupO07091
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
P840 reaction center 17 kDa protein143Chlorobaculum tepidum TLSMutation(s): 0 
UniProt
Find proteins for Q8KEP5 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
Explore Q8KEP5 
Go to UniProtKB:  Q8KEP5
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UniProt GroupQ8KEP5
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Bacteriochlorophyll a protein
E, F, G, H, I
E, F, G, H, I, J
366Chlorobaculum tepidum TLSMutation(s): 0 
UniProt
Find proteins for Q46393 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
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Go to UniProtKB:  Q46393
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UniProt GroupQ46393
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  • Reference Sequence
Small Molecules
Ligands 8 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BCL (Subject of Investigation/LOI)
Query on BCL

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AA [auth A]
AB [auth F]
AC [auth J]
BB [auth G]
BC [auth J]
AA [auth A],
AB [auth F],
AC [auth J],
BB [auth G],
BC [auth J],
CB [auth G],
CC [auth J],
DB [auth G],
DC [auth J],
EB [auth G],
EC [auth J],
FB [auth G],
GB [auth G],
HB [auth H],
IB [auth H],
IC [auth a],
JA [auth E],
JB [auth H],
JC [auth a],
KA [auth E],
KB [auth H],
KC [auth a],
LA [auth E],
LB [auth H],
LC [auth a],
MA [auth E],
MB [auth H],
MC [auth a],
NA [auth E],
NB [auth H],
NC [auth a],
OA [auth E],
OB [auth H],
OC [auth a],
P [auth A],
PA [auth E],
PB [auth I],
PC [auth a],
Q [auth A],
QA [auth E],
QB [auth I],
QC [auth a],
R [auth A],
RA [auth E],
RB [auth I],
RC [auth a],
S [auth A],
SA [auth F],
SB [auth I],
SC [auth a],
T [auth A],
TA [auth F],
TB [auth I],
TC [auth a],
U [auth A],
UA [auth F],
UB [auth I],
V [auth A],
VA [auth F],
VB [auth I],
W [auth A],
WA [auth F],
WB [auth I],
X [auth A],
XA [auth F],
XB [auth I],
Y [auth A],
YA [auth F],
YB [auth J],
Z [auth A],
ZA [auth F],
ZB [auth J]
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-AGGZHOMASA-M
GS0 (Subject of Investigation/LOI)
Query on GS0

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FC [auth a],
M [auth A]
Bacteriochlorophyll A isomer
C55 H74 Mg N4 O6
DSJXIQQMORJERS-NDWDOOJPSA-M
F39 (Subject of Investigation/LOI)
Query on F39

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BA [auth A],
UC [auth a]
[(2R,3S,4S,5R,6R)-6-[(10E,12E,14E)-2,6,10,14,19,23-hexamethyl-25-(2,3,6-trimethylphenyl)pentacosa-6,8,10,12,14,16,18,20,22,24-decaen-2-yl]oxy-3,4,5-tris(oxidanyl)oxan-2-yl]methyl dodecanoate
C58 H86 O7
NXEFUAFHBLRHFO-DDUHONCASA-N
CLA (Subject of Investigation/LOI)
Query on CLA

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GC [auth a],
HC [auth a],
N [auth A],
O [auth A]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
IKV (Subject of Investigation/LOI)
Query on IKV

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EA [auth A],
XC [auth a]
[(2~{R})-2-hexadecanoyloxy-3-[(2~{S},3~{S},4~{R},5~{R},6~{S})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-propyl] hexadecanoate
C41 H78 O10
DFUALJIUMYYHRG-DWBMWBIPSA-N
LHG (Subject of Investigation/LOI)
Query on LHG

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CA [auth A],
DA [auth A],
VC [auth a],
WC [auth a]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
SF4 (Subject of Investigation/LOI)
Query on SF4

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GA [auth A],
HA [auth B],
IA [auth B]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
CA (Subject of Investigation/LOI)
Query on CA

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FA [auth A],
YC [auth a]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.18.2
MODEL REFINEMENTCoot0.8.9.2

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Max Planck SocietyGermany--

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-08
    Type: Initial release