7VY3 image
Entry Detail
PDB ID:
7VY3
EMDB ID:
Keywords:
Title:
STRUCTURE OF PHOTOSYNTHETIC LH1-RC SUPER-COMPLEX OF RHODOBACTER SPHAEROIDES LACKING PROTEIN-U
Biological Source:
PDB Version:
Deposition Date:
2021-11-13
Release Date:
2022-04-27
Method Details:
Experimental Method:
Resolution:
2.63 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Antenna pigment protein 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), X (auth: 1)
Chain Length:54
Number of Molecules:11
Biological Source:Rhodobacter sphaeroides f. sp. denitrificans
Polymer Type:polypeptide(L)
Description:Antenna pigment protein 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:48
Number of Molecules:10
Biological Source:Rhodobacter sphaeroides f. sp. denitrificans
Polymer Type:polypeptide(L)
Description:Photosynthetic reaction center subunit H
Chain IDs:C (auth: H)
Chain Length:260
Number of Molecules:1
Biological Source:Rhodobacter sphaeroides f. sp. denitrificans
Polymer Type:polypeptide(L)
Description:Photosynthetic reaction center L subunit
Chain IDs:A (auth: L)
Chain Length:281
Number of Molecules:1
Biological Source:Rhodobacter sphaeroides f. sp. denitrificans
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 sphaeroides f. sp. denitrificans
Polymer Type:polypeptide(L)
Description:PufX
Chain IDs:Y (auth: X)
Chain Length:81
Number of Molecules:1
Biological Source:Rhodobacter sphaeroides f. sp. denitrificans
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
FME D MET modified residue
Primary Citation
Asymmetric structure of the native Rhodobacter sphaeroides dimeric LH1-RC complex.
Nat Commun 13 1904 1904 (2022)
PMID: 35393413 DOI: 10.1038/s41467-022-29453-8

Abstact

Rhodobacter sphaeroides is a model organism in bacterial photosynthesis, and its light-harvesting-reaction center (LH1-RC) complex contains both dimeric and monomeric forms. Here we present cryo-EM structures of the native LH1-RC dimer and an LH1-RC monomer lacking protein-U (ΔU). The native dimer reveals several asymmetric features including the arrangement of its two monomeric components, the structural integrity of protein-U, the overall organization of LH1, and rigidities of the proteins and pigments. PufX plays a critical role in connecting the two monomers in a dimer, with one PufX interacting at its N-terminus with another PufX and an LH1 β-polypeptide in the other monomer. One protein-U was only partially resolved in the dimeric structure, signaling different degrees of disorder in the two monomers. The ΔU LH1-RC monomer was half-moon-shaped and contained 11 α- and 10 β-polypeptides, indicating a critical role for protein-U in controlling the number of αβ-subunits required for dimer assembly and stabilization. These features are discussed in relation to membrane topology and an assembly model proposed for the native dimeric complex.

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Primary Citation of related structures