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NDH-PSI-LHCI supercomplex from S. oleracea: composite map
Release date: Feb. 12, 2025
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 9grx
Q-score: 0.541
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 9grx
Q-score: 0.541
Introini B, Hahn A, Kuhlbrandt W
Nat Struct Mol Biol (2025) [ Pubmed: 39856350 DOI: doi:10.1038/s41594-024-01478-1 ]
Sample:
- Nad(p)h-quinone oxidoreductase subunit 3, chloroplastic (13 kDa, Protein from Spinacia oleracea)
- Peptidyl-prolyl cis-trans isomerase (18 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of lumenal location 2, chloroplastic (14 kDa, Protein from Spinacia oleracea)
- Phylloquinone (450 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (21 kDa, Protein from Spinacia oleracea)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Photosynthetic ndh subunit of subcomplex b 3, chloroplastic (15 kDa, Protein from Spinacia oleracea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit j, chloroplastic (18 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit vi, chloroplastic (10 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit 6, chloroplastic (19 kDa, Protein from Spinacia oleracea)
- Beta-carotene (536 Da, Ligand)
- Photosynthetic ndh subunit of lumenal location 1, chloroplastic (18 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit ii, chloroplastic (16 kDa, Protein from Spinacia oleracea)
- Photosystem i iron-sulfur center (9 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of lumenal location 3, chloroplastic (16 kDa, Protein from Spinacia oleracea)
- Peptidylprolyl isomerase (15 kDa, Protein from Spinacia oleracea)
- Chlorophyll b (907 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit 1, chloroplastic (38 kDa, Protein from Spinacia oleracea)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit iv, chloroplastic (7 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of subcomplex b 5, chloroplastic (17 kDa, Protein from Spinacia oleracea)
- 5-[(2e,6e,10e,14e,18e,22e)-3,7,11,15,19,23,27-heptamethyloctacosa-2,6,10,14,18,22,26-heptaenyl]-2,3-dimethylbenzo-1,4-quinone (612 Da, Ligand)
- Photosystem i reaction center subunit v, chloroplastic (10 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit l, chloroplastic (13 kDa, Protein from Spinacia oleracea)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase chain 4, chloroplastic (55 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit k, chloroplastic (22 kDa, Protein from Spinacia oleracea)
- Chlorophyll a isomer (893 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit 5, chloroplastic (84 kDa, Protein from Spinacia oleracea)
- Ndh-psi-lhci supercomplex from spinacia oleracea (Complex from Spinacia oleracea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Spinacia oleracea)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of subcomplex b 1, chloroplastic (44 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit xi, chloroplastic (16 kDa, Protein from Spinacia oleracea)
- Photosystem i reaction center subunit iii, chloroplastic (17 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of subcomplex b 4, chloroplastic (10 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit o, chloroplastic (11 kDa, Protein from Spinacia oleracea)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit m, chloroplastic (16 kDa, Protein from Spinacia oleracea)
- Photosynthetic ndh subunit of subcomplex b 2, chloroplastic (40 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit h, chloroplastic (45 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit i, chloroplastic (19 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit n, chloroplastic (18 kDa, Protein from Spinacia oleracea)
- 4-trans-(4-trans-propylcyclohexyl)-cyclohexyl alpha-maltoside (548 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit 2 a, chloroplastic (54 kDa, Protein from Spinacia oleracea)
- Chlorophyll a (893 Da, Ligand)
- Nad(p)h-quinone oxidoreductase subunit 4l, chloroplastic (11 kDa, Protein from Spinacia oleracea)
- Psi-k (13 kDa, Protein from Spinacia oleracea)
- Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Spinacia oleracea)
- Nad(p)h-quinone oxidoreductase subunit u, chloroplastic (27 kDa, Protein from Spinacia oleracea)
Structure of high-light grown Chlorella ohadii photosystem I
Release date: July 28, 2021
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 6zzy
Q-score: 0.561
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 6zzy
Q-score: 0.561
Caspy I, Neumann E, Fadeeva M, Liveanu V, Savitsky A, Frank A, Kalisman YL, Shkolnisky Y, Murik O, Treves H, Hartmann V, Nowaczyk MM, Schuhmann W, Rogner M, Willner I, Kaplan A, Schuster G, Nelson N, Lubitz W, Nechushtai R
Nat Plants (2021) 7 pp. 1314-1322 [ DOI: doi:10.1038/s41477-021-00983-1 Pubmed: 34462576 ]
Sample:
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (10 kDa, Protein from Chlorella ohadii)
- Psi subunit v (16 kDa, Protein from Chlorella ohadii)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Chlorella ohadii)
- Beta,beta-caroten-4-one (550 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (15 kDa, Protein from Chlorella ohadii)
- Glutathione reductase (26 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Chlorella ohadii)
- Psi-k (8 kDa, Protein from Chlorella ohadii)
- Beta-carotene (536 Da, Ligand)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- (2z,4e)-5-[(1s)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid (264 Da, Ligand)
- Ergosterol (396 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chlorella ohadii)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- (2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
- Psi-f (18 kDa, Protein from Chlorella ohadii)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chlorella ohadii)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- Palmitic acid (256 Da, Ligand)
- High light grown chlorella ohadii photosystem i (1 MDa, Complex from Chlorella ohadii)
- (3~{e},5~{e},7~{e})-6-methyl-8-[(6~{r})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one (260 Da, Ligand)
- (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)
- Chlorophyll a isomer (893 Da, Ligand)
- Sphingosine (299 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Chlorella ohadii)
- Tripalmitoylglycerol (807 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- 2-(2-azanylethanoylamino)ethanoic acid (132 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Oleic acid (282 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- [2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chlorella ohadii)
- (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)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Photosystem i reaction center subunit vi-chloroplastic-like (10 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chlorella ohadii)
Structure of small high-light grown Chlorella ohadii photosystem I
Release date: July 28, 2021
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7a4p
Q-score: 0.278
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7a4p
Q-score: 0.278
Caspy I, Neumann E, Fadeeva M, Liveanu V, Savitsky A, Frank A, Kalisman YL, Shkolnisky Y, Murik O, Treves H, Hartmann V, Nowaczyk MM, Schuhmann W, Rogner M, Willner I, Kaplan A, Schuster G, Nelson N, Lubitz W, Nechushtai R
Nat Plants (2021) 7 pp. 1314-1322 [ DOI: doi:10.1038/s41477-021-00983-1 Pubmed: 34462576 ]
Sample:
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (10 kDa, Protein from Chlorella ohadii)
- Psi subunit v (16 kDa, Protein from Chlorella ohadii)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Chlorella ohadii)
- Beta,beta-caroten-4-one (550 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (15 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Chlorella ohadii)
- Glutathione reductase (26 kDa, Protein from Chlorella ohadii)
- Small high light grown chlorella ohadii photosystem i (900 kDa, Complex from Chlorella ohadii)
- Psi-k (8 kDa, Protein from Chlorella ohadii)
- Beta-carotene (536 Da, Ligand)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- Ergosterol (396 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chlorella ohadii)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- (2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
- Psi-f (18 kDa, Protein from Chlorella ohadii)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Chlorella ohadii)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- Palmitic acid (256 Da, Ligand)
- (3~{e},5~{e},7~{e})-6-methyl-8-[(6~{r})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one (260 Da, Ligand)
- (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)
- Chlorophyll a isomer (893 Da, Ligand)
- Sphingosine (299 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Tripalmitoylglycerol (807 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- 2-(2-azanylethanoylamino)ethanoic acid (132 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Oleic acid (282 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- [2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chlorella ohadii)
- (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)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chlorella ohadii)