Cryo-EM structure of the Photosystem I - LHCI supercomplex from Coelastrella sp.
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8cmo
Q-score: 0.537
Fadeeva M, Klaiman D, Nelson N
To Be Published
- Photosystem i reaction center subunit iv psae (6 kDa, Protein from Coelastrella)
- Photosystem i subunit ix psaj (4 kDa, Protein from Coelastrella)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit v psag (9 kDa, Protein from Coelastrella)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl (9e)-octadec-9-enoate (436 Da, Ligand)
- Lauric acid (200 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Octanoic acid (caprylic acid) (144 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (1~{s})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(4~{s})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol (568 Da, Ligand)
- Photosystem i reaction center subunit x psak (8 kDa, Protein from Coelastrella)
- Light-harvesting protein of photosystem i lhca3 (23 kDa, Protein from Coelastrella)
- Light-harvesting protein of photosystem i lhca4 (22 kDa, Protein from Coelastrella)
- Light-harvesting protein of photosystem i lhca6 (24 kDa, Protein from Coelastrella)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit ii psad (16 kDa, Protein from Coelastrella)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Light-harvesting protein of photosystem i lhca8 (22 kDa, Protein from Coelastrella)
- Chlorophyll b (907 Da, Ligand)
- Light-harvesting protein of photosystem i lhca5 (24 kDa, Protein from Coelastrella)
- Coelastrella sp. photosystem i (900 kDa, Complex from Coelastrella)
- Sphingosine (299 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Photosystem i reaction center subunit iii psaf (17 kDa, Protein from Coelastrella)
- Photosystem i reaction center subunit viii psai (4 kDa, Protein from Coelastrella)
- Photosystem i subunit vii psac (8 kDa, Protein from Coelastrella)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- (2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
- Light-harvesting protein of photosystem i lhca1 (20 kDa, Protein from Coelastrella)
- Water (18 Da, Ligand)
- Light-harvesting protein of photosystem i lhca2 partial (7 kDa, Protein from Coelastrella)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Light-harvesting protein of photosystem i lhca9 (20 kDa, Protein from Coelastrella)
- Diacyl glycerol (625 Da, Ligand)
- Photosystem i reaction centre subunit xi psal (12 kDa, Protein from Coelastrella)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 psaa (82 kDa, Protein from Coelastrella)
- Photosystem i p700 chlorophyll a apoprotein a2 psab (81 kDa, Protein from Coelastrella)
- Phosphatidylinositol (887 Da, Ligand)
- Light-harvesting protein of photosystem i lhca7 (24 kDa, Protein from Coelastrella)
- Chlorophyll a isomer (893 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
Dunaliella Minimal Photosystem I
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6yxr
Q-score: 0.453
Caspy I, Malavath T, Klaiman D, Fadeeva M, Shkolnisky Y, Nelson N
Biochim Biophys Acta Bioenerg (2020) 1861 pp. 148253-148253 [ DOI: doi:10.1016/j.bbabio.2020.148253 Pubmed: 32569661 ]
- Photosystem i reaction center subunit ix (4 kDa, Protein from Green alga)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Psaf (18 kDa, Protein from Dunaliella salina)
- Large dunaliella salina photosystem i-lhc supercomplex (Complex from Dunaliella salina)
- Phylloquinone (450 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Lhca4 (23 kDa, Protein from Dunaliella salina)
- Chlorophyll b (907 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (81 kDa, Protein from Green alga)
- Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Green alga)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Psae (7 kDa, Protein from Dunaliella salina)
- Chlorophyll a-b binding protein, chloroplastic (21 kDa, Protein from Green alga)
- Psad (15 kDa, Protein from Dunaliella salina)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Green alga)
- Lhca2 (22 kDa, Protein from Dunaliella salina)
- Photosystem i iron-sulfur center (8 kDa, Protein from Green alga)
- Chlorophyll a isomer (893 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
Dunaliella Photosystem I Supercomplex
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6sl5
Q-score: 0.53
Caspy I, Malavath T, Klaiman D, Fadeeva M, Shkolnisky Y, Nelson N
Biochim Biophys Acta Bioenerg (2020) 1861 pp. 148253-148253 [ DOI: doi:10.1016/j.bbabio.2020.148253 Pubmed: 32569661 ]
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Psad (16 kDa, Protein from Dunaliella salina)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Tripalmitoylglycerol (807 Da, Ligand)
- [(2~{r})-1-nonanoyloxy-3-[oxidanyl-[(2~{r},3~{s},5~{r},6~{r})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] (5~{z},8~{z})-heptadeca-5,8-dienoate (722 Da, Ligand)
- Large dunaliella salina photosystem i-lhc supercomplex (Complex from Dunaliella salina)
- Psal (16 kDa, Protein from Dunaliella salina)
- Lhca5 (21 kDa, Protein from Dunaliella salina)
- Phylloquinone (450 Da, Ligand)
- Octadecanal (268 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Green alga)
- Chlorophyll a isomer (893 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Psah (10 kDa, Protein from Dunaliella salina)
- Lhca4 (23 kDa, Protein from Dunaliella salina)
- Trimethyl-[(2~{r})-1-oxidanyl-1-oxidanylidene-4-[(2~{s})-2-[(1~{s})-1-oxidanyloctadecoxy]-3-[(1~{r})-1-oxidanyloctadecoxy]propoxy]butan-2-yl]azanium (773 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Lhca6 (19 kDa, Protein from Dunaliella salina)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- Psaf (18 kDa, Protein from Dunaliella salina)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Dunaliella salina)
- Calcium ion (40 Da, Ligand)
- Psao (9 kDa, Protein from Dunaliella salina)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Psae (7 kDa, Protein from Dunaliella salina)
- Chlorophyll a-b binding protein, chloroplastic (21 kDa, Protein from Green alga)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Lhca2 (22 kDa, Protein from Dunaliella salina)
- Psai (4 kDa, Protein from Dunaliella salina)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Psag (10 kDa, Protein from Dunaliella salina)
- Psak (8 kDa, Protein from Dunaliella salina)
- Photosystem i iron-sulfur center (8 kDa, Protein from Green alga)
- Photosystem i p700 chlorophyll a apoprotein a1 (81 kDa, Protein from Green alga)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Green alga)
- Iron/sulfur cluster (351 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
Structure of a minimal photosystem I from a green alga
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6rhz
Q-score: 0.467
Perez-Boerema A, Klaiman D, Caspy I, Netzer-El SY, Amunts A, Nelson N
Nat Plants (2020) 6 pp. 321-327 [ DOI: doi:10.1038/s41477-020-0611-9 Pubmed: 32123351 ]
- Photosystem i reaction center subunit ix (4 kDa, Protein from Green alga)
- Chlorophyll a-b binding protein, lhca2 (22 kDa, Protein from Dunaliella salina)
- Chlorophyll a-b binding protein, lhca4 (23 kDa, Protein from Dunaliella salina)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Phylloquinone (450 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit ii, psad (15 kDa, Protein from Dunaliella salina)
- Photosystem i reaction center subunit iv, psae (7 kDa, Protein from Dunaliella salina)
- Chlorophyll b (907 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (81 kDa, Protein from Green alga)
- Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Green alga)
- Photosystem i reaction center subunit iii, psaf (18 kDa, Protein from Dunaliella salina)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (21 kDa, Protein from Green alga)
- Photosystem i (Complex from Dunaliella salina)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Green alga)
- Photosystem i iron-sulfur center (8 kDa, Protein from Green alga)
- Chlorophyll a isomer (893 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
Photosystem I of Chlamydomonas reinhardtii
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6ijo
Q-score: 0.469
Su X, Ma J, Pan X, Zhao X, Chang W, Liu Z, Zhang X, Li M
Nat Plants (2019) 5 pp. 273-281 [ DOI: doi:10.1038/s41477-019-0380-5 Pubmed: 30850819 ]
- Psaj (4 kDa, Protein from Chlamydomonas reinhardtii)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Psaf (24 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca8 (29 kDa, Protein from Chlamydomonas reinhardtii)
- Phylloquinone (450 Da, Ligand)
- Psak (16 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca5 (30 kDa, Protein from Chlamydomonas reinhardtii)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Lhca2 (24 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca7 (26 kDa, Protein from Chlamydomonas reinhardtii)
- Psal (27 kDa, Protein from Chlamydomonas reinhardtii)
- Psad (27 kDa, Protein from Chlamydomonas reinhardtii)
- Psag (16 kDa, Protein from Chlamydomonas reinhardtii)
- Chlamydomonas reinhardtii psi with ten light harvesting antennae (Complex from Chlamydomonas reinhardtii)
- Psaa (83 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca4 (31 kDa, Protein from Chlamydomonas reinhardtii)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- Chainx (1 kDa, Protein from Chlamydomonas reinhardtii)
- Psab (82 kDa, Protein from Chlamydomonas reinhardtii)
- Psac (8 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca9 (22 kDa, Protein from Chlamydomonas reinhardtii)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Lhca1 (26 kDa, Protein from Chlamydomonas reinhardtii)
- Psah (17 kDa, Protein from Chlamydomonas reinhardtii)
- Beta-carotene (536 Da, Ligand)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Lhca6 (35 kDa, Protein from Chlamydomonas reinhardtii)
- Iron/sulfur cluster (351 Da, Ligand)
- Psai (10 kDa, Protein from Chlamydomonas reinhardtii)
- Lhca3 (32 kDa, Protein from Chlamydomonas reinhardtii)
- Psae (16 kDa, Protein from Chlamydomonas reinhardtii)