Stacked stretched Dunaliella PSII
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7piw
Q-score: 0.236
Caspy I, Fadeeva M, Mazor Y, Nelson N
eLife (2023) 12 [ DOI: doi:10.7554/eLife.81150 Pubmed: 36799903 ]
- Photosystem ii reaction center protein k (4 kDa, Protein from Dunaliella salina)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Lhcii m3 (24 kDa, Protein from Dunaliella salina)
- Photosystem ii d2 protein (38 kDa, Protein from Dunaliella salina)
- Beta-carotene (536 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 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)
- (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)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem ii reaction center protein l (4 kDa, Protein from Dunaliella salina)
- Glycerol (92 Da, Ligand)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Photosystem ii reaction center protein m (3 kDa, Protein from Dunaliella salina)
- Photosystem ii cp47 reaction center protein (53 kDa, Protein from Dunaliella salina)
- Photosystem ii reaction center protein t (3 kDa, Protein from Dunaliella salina)
- Phosphatidylethanolamine (734 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Psbx (2 kDa, Protein from Dunaliella salina)
- Cp29 (21 kDa, Protein from Dunaliella salina)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem ii reaction center protein i (3 kDa, Protein from Dunaliella salina)
- (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 ii protein d1 (37 kDa, Protein from Dunaliella salina)
- Bicarbonate ion (61 Da, Ligand)
- Pheophytin a (871 Da, Ligand)
- Cp26 (26 kDa, Protein from Dunaliella salina)
- Photosystem ii reaction center protein ycf12 (3 kDa, Protein from Dunaliella salina)
- Ergosterol (396 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- Psbu (3 kDa, Protein from Dunaliella salina)
- Psbp (20 kDa, Protein from Dunaliella salina)
- Cytochrome b559 subunit beta (3 kDa, Protein from Dunaliella salina)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Dunaliella salina photosystem ii complex (Complex from Dunaliella salina)
- Psbo (25 kDa, Protein from Dunaliella salina)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Photosystem ii cp43 reaction center protein (49 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)
- Diacyl glycerol (625 Da, Ligand)
- Tripalmitoylglycerol (807 Da, Ligand)
- Lhcii m2 (23 kDa, Protein from Dunaliella salina)
- Photosystem ii reaction center protein m (3 kDa, Protein from Dunaliella salina)
- Chloride ion (35 Da, Ligand)
- Cp29 (21 kDa, Protein from Dunaliella salina)
- Cytochrome b559 subunit alpha (8 kDa, Protein from Dunaliella salina)
- Photosystem ii reaction center protein h (7 kDa, Protein from Dunaliella salina)
- Psbw (4 kDa, Protein from Dunaliella salina)
- Sphingosine (299 Da, Ligand)
- 2,3-dimethyl-5-(3,7,11,15,19,23,27,31,35-nonamethyl-2,6,10,14,18,22,26,30,34-hexatriacontanonaenyl-2,5-cyclohexadiene-1,4-dione-2,3-dimethyl-5-solanesyl-1,4-benzoquinone (749 Da, Ligand)
- Lhcii m1 (23 kDa, Protein from Dunaliella salina)
- Photosystem ii reaction center protein j (3 kDa, Protein from Dunaliella salina)
- Psbz (6 kDa, Protein from Dunaliella salina)
Structure of a Minimal Photosystem I
Resolution: 4.31 Å
EM Method: Single-particle
Fitted PDBs: 7o1v
Q-score: 0.4
Akhtar P, Caspy I, Nowakowski PJ, Malavath T, Nelson N, Tan HS, Lambrev PH
J Am Chem Soc (2021) 143 pp. 14601-14612 [ Pubmed: 34472838 DOI: doi:10.1021/jacs.1c05010 ]
- Minimal photosystem i (Complex from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Photosystem i reaction center subunit psak 2 (8 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Beta-carotene (536 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Photosystem i reaction center subunit iv (7 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Phylloquinone (450 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Beta,beta-caroten-4-one (550 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
- Photosystem i p700 chlorophyll a apoprotein a1 (81 kDa, Protein from Synechocystis sp. (strain PCC 6803 / Kazusa))
Structure of small high-light grown Chlorella ohadii photosystem I
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 [ Pubmed: 34462576 DOI: doi:10.1038/s41477-021-00983-1 ]
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Psi subunit v (16 kDa, Protein from Chlorella ohadii)
- [2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Chlorella ohadii)
- (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)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Chlorella ohadii)
- Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Chlorella ohadii)
- Chlorophyll b (907 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 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 xii (3 kDa, Protein from Chlorella ohadii)
- Ergosterol (396 Da, Ligand)
- Psi-k (8 kDa, Protein from Chlorella ohadii)
- Palmitic acid (256 Da, Ligand)
- Phylloquinone (450 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)
- Psi-f (18 kDa, Protein from Chlorella ohadii)
- Oleic acid (282 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (15 kDa, Protein from Chlorella ohadii)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chlorella ohadii)
- Chlorophyll a (893 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Chlorella ohadii)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chlorella ohadii)
- 2-(2-azanylethanoylamino)ethanoic acid (132 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- Tripalmitoylglycerol (807 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Small high light grown chlorella ohadii photosystem i (900 kDa, Complex from Chlorella ohadii)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Chlorella ohadii)
- Glutathione reductase (26 kDa, Protein from Chlorella ohadii)
- Sphingosine (299 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Chlorella ohadii)
- Chlorophyll a isomer (893 Da, Ligand)
- Photosystem i reaction center subunit chloroplastic (10 kDa, Protein from Chlorella ohadii)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chlorella ohadii)
- Beta,beta-caroten-4-one (550 Da, Ligand)