Rba sphaeroides WT RC-LH1 monomer
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 7vny
Q-score: 0.633
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Rsp_7571 protein-y pufy (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Rhodobacter sphaeroides wt rc-lh1 monomer (Complex from Rhodobacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Bacteriopheophytin b (887 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Fe (ii) ion (55 Da, Ligand)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Intrinsic membrane protein pufx (9 kDa, Protein from Cereibacter sphaeroides 2.4.1)
Rba sphaeroides PufY-KO RC-LH1 dimer type-1
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 7va9
Q-score: 0.517
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Bacteriopheophytin b (887 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Fe (ii) ion (55 Da, Ligand)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Rhodobacter sphaeroides pufy-ko rc-lh1 dimer type-1 (Complex from Rhodobacter sphaeroides 2.4.1)
- Intrinsic membrane protein pufx (9 kDa, Protein from Cereibacter sphaeroides 2.4.1)
Rba sphaeroides PufY-KO RC-LH1 dimer type-2
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 7vb9
Q-score: 0.456
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Fe (ii) ion (55 Da, Ligand)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Rhodobacter sphaeroides pufy-ko rc-lh1 dimer type-2 (Complex from Rhodobacter sphaeroides 2.4.1)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- Intrinsic membrane protein pufx (9 kDa, Protein from Cereibacter sphaeroides 2.4.1)
Rba sphaeroides PufY-KO RC-LH1 monomer
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 7vnm
Q-score: 0.591
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Fe (ii) ion (55 Da, Ligand)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Rhodobacter sphaeroides pufy-ko rc-lh1 monomer (Complex from Rhodobacter sphaeroides 2.4.1)
- Bacteriopheophytin a (889 Da, Ligand)
- Intrinsic membrane protein pufx (9 kDa, Protein from Cereibacter sphaeroides 2.4.1)
Rba sphaeroides PufX-KO RC-LH1
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7voy
Q-score: 0.372
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Rhodobacter sphaeroides pufx-ko rc-lh1 (Complex from Rhodobacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Speroidenone (594 Da, Ligand)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
The structure of dimeric photosynthetic RC-LH1 supercomplex in Class-1
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 7vor
Q-score: 0.573
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- The dimeric photosynthetic rc-lh1 supercomplex in class1 (Complex from Cereibacter sphaeroides 2.4.1)
- Reaction center protein m chain (34 kDa, Protein from Cereibacter sphaeroides)
- Reaction center protein l chain (31 kDa, Protein from Cereibacter sphaeroides)
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Cereibacter sphaeroides)
- Bacteriochlorophyll a (911 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Reaction center protein h chain (28 kDa, Protein from Cereibacter sphaeroides)
- Rsp_7571 protein-y pufy (5 kDa, Protein from Cereibacter sphaeroides)
- Cardiolipin (1 kDa, Ligand)
- Ubiquinone-10 (863 Da, Ligand)
- Intrinsic membrane protein pufx (9 kDa, Protein from Cereibacter sphaeroides)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Cereibacter sphaeroides)
- Fe (ii) ion (55 Da, Ligand)
The structure of dimeric photosynthetic RC-LH1 supercomplex in Class-2
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7vot
Q-score: 0.542
Cao P, Bracun L, Yamagata A, Christianson BM, Negami T, Zou B, Terada T, Canniffe DP, Shirouzu M, Li M, Liu LN
Nat Commun (2022) 13 pp. 1977-1977 [ DOI: doi:10.1038/s41467-022-29563-3 Pubmed: 35418573 ]
- Light-harvesting protein b-875 beta chain (5 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Reaction center protein m chain (34 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Rsp_7571 protein-y pufy (5 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Bacteriochlorophyll a (911 Da, Ligand)
- Light-harvesting protein b-875 alpha chain (6 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Bacteriopheophytin b (887 Da, Ligand)
- Spheroidene (568 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Reaction center protein l chain (31 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Reaction center protein h chain (28 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- Ubiquinone-10 (863 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Intrinsic membrane protein pufx (9 kDa, Protein from Rhodobacter sphaeroides 2.4.1)
- The dimeric photosynthetic rc-lh1 supercomplex in class2 (Complex from Cereibacter sphaeroides 2.4.1)
Structure of RC-LH1-PufX from Rhodobacter veldkampii
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 7ddq
Q-score: 0.538
Bracun L, Yamagata A, Christianson BM, Terada T, Canniffe DP, Shirouzu M, Liu LN
Sci Adv (2021) 7 [ Pubmed: 34134992 DOI: doi:10.1126/sciadv.abf8864 ]
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Photosynthetic reaction center l subunit (30 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Bacteriochlorophyll a (911 Da, Ligand)
- Photosynthetic core complex featuring reaction center, lh1 and pufx (Complex from Rhodobacter veldkampii DSM 11550)
- Pufx (8 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Photosynthetic reaction center subunit h (27 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Fe (iii) ion (55 Da, Ligand)
- Ubiquinone-10 (863 Da, Ligand)
- Antenna pigment protein alpha chain (6 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Antenna pigment protein beta chain (5 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Reaction center protein m chain (34 kDa, Protein from Rhodobacter veldkampii DSM 11550)
- Bacteriopheophytin a (889 Da, Ligand)
- Spheroidene (568 Da, Ligand)
RC-LH1(16) complex from Rhodopseudomonas palustris
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6z5r
Q-score: 0.603
Swainsbury DJK, Qian P, Jackson PJ, Faries KM, Niedzwiedzki DM, Martin EC, Farmer DA, Malone LA, Thompson RF, Ranson NA, Canniffe DP, Dickman MJ, Holten D, Kirmaier C, Hitchcock A, Hunter CN
Sci Adv (2021) 7 [ Pubmed: 33523887 DOI: doi:10.1126/sciadv.abe2631 ]
- Reaction center-light harvesting complex 1 (3 MDa, Complex from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Light-harvesting complex 1 alpha chain (5 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Light-harvesting complex 1 beta chain (5 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- (6~{r},10~{s},14~{r},19~{r},23~{s},24~{e},27~{s},28~{e})-2,6,10,14,19,23,27,31-octamethyldotriaconta-24,28-dien-2-ol (575 Da, Ligand)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- H subunit of photosynthetic reaction center complex (27 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- (4s,7r)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Water (18 Da, Ligand)
- Reaction center protein l chain (30 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Bacteriochlorophyll a (911 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Bacteriopheophytin a (889 Da, Ligand)
- Ubiquinone-10 (863 Da, Ligand)
- Spirilloxanthin (596 Da, Ligand)
RC-LH1(14)-W complex from Rhodopseudomonas palustris
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 6z5s
Q-score: 0.593
Swainsbury DJK, Qian P, Jackson PJ, Faries KM, Niedzwiedzki DM, Martin EC, Farmer DA, Malone LA, Thompson RF, Ranson NA, Canniffe DP, Dickman MJ, Holten D, Kirmaier C, Hitchcock A, Hunter CN
Sci Adv (2021) 7 [ Pubmed: 33523887 DOI: doi:10.1126/sciadv.abe2631 ]
- Light harvesting complex 1 protein w (10 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- (6~{r},10~{s},14~{r},19~{r},23~{s},24~{e},27~{s},28~{e})-2,6,10,14,19,23,27,31-octamethyldotriaconta-24,28-dien-2-ol (575 Da, Ligand)
- Light-harvesting complex 1 alpha chain (7 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Spirilloxanthin (596 Da, Ligand)
- H subunit of photosynthetic reaction center complex (27 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Light-harvesting complex 1 beta chain (7 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- (4s,7r)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Water (18 Da, Ligand)
- Reaction center protein l chain (30 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Bacteriochlorophyll a (911 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Reaction center protein m chain (34 kDa, Protein from Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009))
- Reaction center-light harvesting complex 1-protein w (3 MDa, Complex from Rhodopseudomonas palustris CGA009)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Ubiquinone-10 (863 Da, Ligand)
- Bacteriopheophytin a (889 Da, Ligand)