7YML image
Entry Detail
PDB ID:
7YML
EMDB ID:
Keywords:
Title:
Structure of photosynthetic LH1-RC super-complex of Rhodobacter capsulatus
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2022-07-28
Release Date:
2023-02-22
Method Details:
Experimental Method:
Resolution:
2.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Light-harvesting protein B-870 alpha chain
Chain IDs:D (auth: A), F (auth: D), H (auth: F), J (auth: I), L (auth: K), N (auth: O), P (auth: Q), R (auth: S), T (auth: V), V (auth: Y)
Chain Length:58
Number of Molecules:10
Biological Source:Rhodobacter capsulatus
Polymer Type:polypeptide(L)
Description:Light-harvesting protein B-870 beta chain
Chain IDs:E (auth: B), G (auth: E), I (auth: G), K (auth: J), M (auth: N), O (auth: P), Q (auth: R), S (auth: T), U (auth: W), W (auth: Z)
Chain Length:49
Number of Molecules:10
Biological Source:Rhodobacter capsulatus
Polymer Type:polypeptide(L)
Description:Photosynthetic reaction center H subunit
Chain IDs:C (auth: H)
Chain Length:253
Number of Molecules:1
Biological Source:Rhodobacter capsulatus
Polymer Type:polypeptide(L)
Description:Reaction center protein L chain
Chain IDs:A (auth: L)
Chain Length:282
Number of Molecules:1
Biological Source:Rhodobacter capsulatus
Polymer Type:polypeptide(L)
Description:Reaction center protein M chain
Chain IDs:B (auth: M)
Chain Length:307
Number of Molecules:1
Biological Source:Rhodobacter capsulatus
Polymer Type:polypeptide(L)
Description:Photosynthetic reaction center PufX protein
Chain IDs:X
Chain Length:78
Number of Molecules:1
Biological Source:Rhodobacter capsulatus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
FME D MET modified residue
Primary Citation
Rhodobacter capsulatus forms a compact crescent-shaped LH1-RC photocomplex.
Nat Commun 14 846 846 (2023)
PMID: 36792596 DOI: 10.1038/s41467-023-36460-w

Abstact

Rhodobacter (Rba.) capsulatus has been a favored model for studies of all aspects of bacterial photosynthesis. This purple phototroph contains PufX, a polypeptide crucial for dimerization of the light-harvesting 1-reaction center (LH1-RC) complex, but lacks protein-U, a U-shaped polypeptide in the LH1-RC of its close relative Rba. sphaeroides. Here we present a cryo-EM structure of the Rba. capsulatus LH1-RC purified by DEAE chromatography. The crescent-shaped LH1-RC exhibits a compact structure containing only 10 LH1 αβ-subunits. Four αβ-subunits corresponding to those adjacent to protein-U in Rba. sphaeroides were absent. PufX in Rba. capsulatus exhibits a unique conformation in its N-terminus that self-associates with amino acids in its own transmembrane domain and interacts with nearby polypeptides, preventing it from interacting with proteins in other complexes and forming dimeric structures. These features are discussed in relation to the minimal requirements for the formation of LH1-RC monomers and dimers, the spectroscopic behavior of both the LH1 and RC, and the bioenergetics of energy transfer from LH1 to the RC.

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Primary Citation of related structures