6M32

Cryo-EM structure of FMO-RC complex from green sulfur bacteria


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 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

Architecture of the photosynthetic complex from a green sulfur bacterium.

Chen, J.H.Wu, H.Xu, C.Liu, X.C.Huang, Z.Chang, S.Wang, W.Han, G.Kuang, T.Shen, J.R.Zhang, X.

(2020) Science 370

  • DOI: https://doi.org/10.1126/science.abb6350
  • Primary Citation of Related Structures:  
    6M32

  • PubMed Abstract: 

    The photosynthetic apparatus of green sulfur bacteria (GSB) contains a peripheral antenna chlorosome, light-harvesting Fenna-Matthews-Olson proteins (FMO), and a reaction center (GsbRC). We used cryo-electron microscopy to determine a 2.7-angstrom structure of the FMO-GsbRC supercomplex from Chlorobaculum tepidum The GsbRC binds considerably fewer (bacterio)chlorophylls [(B)Chls] than other known type I RCs do, and the organization of (B)Chls is similar to that in photosystem II. Two BChl layers in GsbRC are not connected by Chls, as seen in other RCs, but associate with two carotenoid derivatives. Relatively long distances of 22 to 33 angstroms were observed between BChls of FMO and GsbRC, consistent with the inefficient energy transfer between these entities. The structure contains common features of both type I and type II RCs and provides insight into the evolution of photosynthetic RCs.


  • Organizational Affiliation

    Department of Pathology of Sir Run Run Shaw Hospital and Department of Biophysics, Zhejiang University School of Medicine, Hangzhou, 310058 Zhejiang, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Bacteriochlorophyll a proteinA [auth E],
B [auth F],
C [auth G]
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
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Entity ID: 2
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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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem P840 reaction center iron-sulfur proteinE [auth B]231Chlorobaculum 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
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UniProt GroupQ8KAY1
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem P840 reaction center, large subunitF [auth A],
G [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
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UniProt GroupQ8KAY0
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  • Reference Sequence
Small Molecules
Ligands 9 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GS0
Query on GS0

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EB [auth a],
HA [auth A]
Bacteriochlorophyll A isomer
C55 H74 Mg N4 O6
DSJXIQQMORJERS-NDWDOOJPSA-M
BCL
Query on BCL

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AA [auth G]
BA [auth G]
CA [auth G]
DA [auth G]
EA [auth G]
AA [auth G],
BA [auth G],
CA [auth G],
DA [auth G],
EA [auth G],
FB [auth a],
GB [auth a],
H [auth E],
HB [auth a],
I [auth E],
IA [auth A],
IB [auth a],
J [auth E],
JA [auth A],
JB [auth a],
K [auth E],
KA [auth A],
KB [auth a],
L [auth E],
LA [auth A],
LB [auth a],
M [auth E],
MA [auth A],
MB [auth a],
N [auth E],
NA [auth A],
NB [auth a],
O [auth E],
OA [auth A],
OB [auth a],
P [auth F],
PA [auth A],
PB [auth a],
Q [auth F],
QA [auth A],
QB [auth a],
R [auth F],
RA [auth A],
S [auth F],
SA [auth A],
T [auth F],
TA [auth A],
U [auth F],
V [auth F],
W [auth F],
X [auth G],
Y [auth G],
Z [auth G]
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-AGGZHOMASA-M
F39
Query on F39

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SB [auth a],
VA [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
G2O
Query on G2O

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AB [auth A],
BB [auth A],
CB [auth a],
DB [auth a]
Chlorophyll A ester
C55 H70 Mg N4 O5
VQHOHZHNXFAELH-DMJPLALWSA-M
LMG
Query on LMG

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UB [auth a],
XA [auth A]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LHG
Query on LHG

Download Ideal Coordinates CCD File 
TB [auth a],
WA [auth A]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
F26
Query on F26

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RB [auth a],
UA [auth A]
2-[(1E,3E,5E,7E,9E,11E,13E,15E,17E,19E)-3,7,12,16,20,24-hexamethylpentacosa-1,3,5,7,9,11,13,15,17,19,23-undecaenyl]-1,3,4-trimethyl-benzene
C40 H52
VJASLAGEYVTOGS-IQAIWTHGSA-N
SF4
Query on SF4

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FA [auth B],
GA [auth B],
ZA [auth A]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
VB [auth a],
YA [auth A]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC2.12

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-11-25
    Type: Initial release
  • Version 1.1: 2020-12-09
    Changes: Database references