Cryo-EM Structure of PSII at 2.08 angstrom resolution
Resolution: 2.08 Å
EM Method: Single-particle
Fitted PDBs: 7d1u
Q-score: 0.757
Kato K, Miyazaki N, Hamaguchi T, Nakajima Y, Akita F, Yonekura K, Shen JR
Commun Biol (2021) 4 pp. 382-382 [ DOI: doi:10.1038/s42003-021-01919-3 Pubmed: 33753866 ]
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii d2 protein (38 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii reaction center protein j (3 kDa, Protein from Thermosynechococcus vulcanus)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Thermosynechococcus vulcanus)
- Unknown ligand (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)
- Photosystem ii reaction center protein m (3 kDa, Protein from Thermosynechococcus vulcanus)
- Heme c (618 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- (3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
- Bicarbonate ion (61 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- Psii dimer (725 kDa, Complex from Thermosynechococcus vulcanus)
- Photosystem ii reaction center protein t (3 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii reaction center protein i (4 kDa, Protein from Thermosynechococcus vulcanus)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem ii cp43 reaction center protein (49 kDa, Protein from Thermosynechococcus vulcanus)
- Water (18 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Photosystem ii reaction center protein z (6 kDa, Protein from Thermosynechococcus vulcanus)
- Pheophytin a (871 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem ii 12 kda extrinsic protein (10 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii protein y (3 kDa, Protein from Thermosynechococcus vulcanus)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Photosystem ii reaction center protein h (7 kDa, Protein from Thermosynechococcus vulcanus)
- Magnesium ion (24 Da, Ligand)
- Photosystem ii reaction center protein x (4 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii protein d1 (37 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii reaction center protein ycf12 (3 kDa, Protein from Thermosynechococcus vulcanus)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Cytochrome c-550 (15 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem ii manganese-stabilizing polypeptide (26 kDa, Protein from Thermosynechococcus vulcanus)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Photosystem ii reaction center protein l (4 kDa, Protein from Thermosynechococcus vulcanus)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Photosystem ii reaction center protein k (4 kDa, Protein from Thermosynechococcus vulcanus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Cytochrome b559 subunit beta (3 kDa, Protein from Thermosynechococcus vulcanus)
Cryo-EM Structure of PSII at 2.22 angstrom resolution
Kato K, Miyazaki N, Hamaguchi T, Nakajima Y, Akita F, Yonekura K, Shen JR
Commun Biol (2021) 4 pp. 382-382 [ DOI: doi:10.1038/s42003-021-01919-3 Pubmed: 33753866 ]
- Psii dimer (725 kDa, Complex from Thermosynechococcus vulcanus)
Cryo-EM Structure of PSII at 2.20 angstrom resolution
Kato K, Miyazaki N, Hamaguchi T, Nakajima Y, Akita F, Yonekura K, Shen JR
Commun Biol (2021) 4 pp. 382-382 [ DOI: doi:10.1038/s42003-021-01919-3 Pubmed: 33753866 ]
- Psii dimer (725 kDa, Complex from Thermosynechococcus vulcanus)
Structure of PSI-isiA supercomplex from Thermosynechococcus vulcanus
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 6k33
Q-score: 0.445
Akita F, Nagao R, Kato K, Nakajima Y, Yokono M, Ueno Y, Suzuki T, Dohmae N, Shen JR, Akimoto S, Miyazaki N
Commun Biol (2020) 3 pp. 232-232 [ DOI: doi:10.1038/s42003-020-0949-6 Pubmed: 32393811 ]
- Photosystem i reaction center subunit iv (8 kDa, Protein from Thermosynechococcus vulcanus)
- Phylloquinone (450 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit viii (4 kDa, Protein from Thermosynechococcus vulcanus)
- Beta-carotene (536 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Water (18 Da, Ligand)
- Iron stress in-duced protein a (39 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Thermosynechococcus vulcanus)
- Chlorophyll a isomer (893 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Thermosynechococcus vulcanus)
- Calcium ion (40 Da, Ligand)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Thermosynechococcus vulcanus)
- Psi-isia (1 MDa, Complex from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thermosynechococcus vulcanus)
- Photosystem i reaction center subunit psax (3 kDa, Protein from Thermosynechococcus vulcanus)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
Structure of PSI from H. hongdechloris grown under white light condition
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 6kmw
Q-score: 0.645
Kato K, Shinoda T, Nagao R, Akimoto S, Suzuki T, Dohmae N, Chen M, Allakhverdiev SI, Shen JR, Akita F, Miyazaki N, Tomo T
Nat Commun (2020) 11 pp. 238-238 [ DOI: doi:10.1038/s41467-019-13898-5 Pubmed: 31932639 ]
- White psi (Complex from Halomicronema hongdechloris C2206)
- Phylloquinone (450 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (83 kDa, Protein from Halomicronema hongdechloris C2206)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Unknown ligand (Ligand)
- Beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i reaction center subunit viii (4 kDa, Protein from Halomicronema hongdechloris C2206)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Halomicronema hongdechloris C2206)
- Water (18 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Halomicronema hongdechloris C2206)
- Chlorophyll a isomer (893 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i p700 chlorophyll a apoprotein a1 (84 kDa, Protein from Halomicronema hongdechloris C2206)
- Calcium ion (40 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
Structure of PSI from H. hongdechloris grown under far-red light condition
Resolution: 2.41 Å
EM Method: Single-particle
Fitted PDBs: 6kmx
Q-score: 0.649
Kato K, Shinoda T, Nagao R, Akimoto S, Suzuki T, Dohmae N, Chen M, Allakhverdiev SI, Shen JR, Akita F, Miyazaki N, Tomo T
Nat Commun (2020) 11 pp. 238-238 [ DOI: doi:10.1038/s41467-019-13898-5 Pubmed: 31932639 ]
- Photosystem i reaction center subunit psak (9 kDa, Protein from Halomicronema hongdechloris C2206)
- Phylloquinone (450 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Unknown ligand (Ligand)
- Far-red psi (Complex from Halomicronema hongdechloris)
- Beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Halomicronema hongdechloris C2206)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Water (18 Da, Ligand)
- Chlorophyll f (905 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i p700 chlorophyll a apoprotein a1 (87 kDa, Protein from Halomicronema hongdechloris C2206)
- Chlorophyll a isomer (893 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (83 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i iron-sulfur center (8 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i reaction center subunit xi (20 kDa, Protein from Halomicronema hongdechloris C2206)
- Photosystem i reaction center subunit viii (7 kDa, Protein from Halomicronema hongdechloris C2206)
- Calcium ion (40 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)