Structure of stacked C2S2M2-type PSII-LHCII supercomplex from Pisum sativum
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 5xnl
Q-score: 0.508
Su X, Ma J, Wei X, Cao P, Zhu D, Chang W, Liu Z, Zhang X, Li M
Science (2017) 357 pp. 815-820 [ Pubmed: 28839073 DOI: doi:10.1126/science.aan0327 ]
- Fe (ii) ion (55 Da, Ligand)
- Photosystem ii reaction center protein w (5 kDa, Protein from Pisum sativum)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Light harvesting chlorophyll a/b-binding protein lhcb4, cp29 (27 kDa, Protein from Pisum sativum)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem ii reaction center protein m (3 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein k (6 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein x (8 kDa, Protein from Pisum sativum)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein 8, chloroplastic (24 kDa, Protein from Pisum sativum)
- Light harvesting chlorophyll a/b-binding protein lhcb5, cp26 (26 kDa, Protein from Pisum sativum)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Light harvesting chlorophyll a/b-binding protein lhcb6, cp24 (22 kDa, Protein from Pisum sativum)
- Oxygen-evolving enhancer protein 2, chloroplastic (20 kDa, Protein from Pisum sativum)
- C2s2m2-type psii-lhcii supercomplex from pisum sativum (Complex from Pisum sativum)
- Bicarbonate ion (61 Da, Ligand)
- Water (18 Da, Ligand)
- Pheophytin a (871 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)
- Cytochrome b559 subunit beta, psbf (4 kDa, Protein from Pisum sativum)
- Photosystem ii protein d1 (38 kDa, Protein from Pisum sativum)
- Chlorophyll a (893 Da, Ligand)
- Oxygen-evolving enhancer protein 3 (16 kDa, Protein from Pisum sativum)
- Photosystem ii d2 protein (39 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein t (4 kDa, Protein from Pisum sativum)
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Pisum sativum)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Pisum sativum)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Pisum sativum)
- 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 cp43 reaction center protein (52 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein l (4 kDa, Protein from Pisum sativum)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem ii reaction center protein h (7 kDa, Protein from Pisum sativum)
- Oxygen-evolving enhancer protein 1, chloroplastic (26 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein j (4 kDa, Protein from Pisum sativum)
- 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)
- Photosystem ii reaction center protein i, psbi (4 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein z (6 kDa, Protein from Pisum sativum)
Structure of unstacked C2S2M2-type PSII-LHCII supercomplex from Pisum sativum
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 5xnm
Q-score: 0.438
Su X, Ma J, Wei X, Cao P, Zhu D, Chang W, Liu Z, Zhang X, Li M
Science (2017) 357 pp. 815-820 [ Pubmed: 28839073 DOI: doi:10.1126/science.aan0327 ]
- Fe (ii) ion (55 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Light harvesting chlorophyll a/b-binding protein lhcb4, cp29 (27 kDa, Protein from Pisum sativum)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem ii luminal extrinsic protein tn, psbtn (10 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein m (3 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein k (6 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein x (8 kDa, Protein from Pisum sativum)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Light harvesting chlorophyll a/b-binding protein lhcb5, cp26 (26 kDa, Protein from Pisum sativum)
- Chlorophyll a-b binding protein 8, chloroplastic (24 kDa, Protein from Pisum sativum)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Light harvesting chlorophyll a/b-binding protein lhcb6, cp24 (22 kDa, Protein from Pisum sativum)
- C2s2m2-type psii-lhcii supercomplex from pisum sativum (Complex from Pisum sativum)
- Bicarbonate ion (61 Da, Ligand)
- Pheophytin a (871 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)
- Cytochrome b559 subunit beta, psbf (4 kDa, Protein from Pisum sativum)
- Photosystem ii protein d1 (38 kDa, Protein from Pisum sativum)
- Chlorophyll a (893 Da, Ligand)
- Photosystem ii d2 protein (39 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein t (4 kDa, Protein from Pisum sativum)
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Pisum sativum)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Pisum sativum)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Pisum sativum)
- 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 w, psbw (5 kDa, Protein from Pisum sativum)
- Photosystem ii cp43 reaction center protein (52 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein l (4 kDa, Protein from Pisum sativum)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem ii reaction center protein h (7 kDa, Protein from Pisum sativum)
- Oxygen-evolving enhancer protein 1, chloroplastic (26 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein j (4 kDa, Protein from Pisum sativum)
- 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)
- Photosystem ii reaction center protein i, psbi (4 kDa, Protein from Pisum sativum)
- Photosystem ii reaction center protein z (6 kDa, Protein from Pisum sativum)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 5xnn
Q-score: 0.447
Su X, Ma J, Wei X, Cao P, Zhu D, Chang W, Liu Z, Zhang X, Li M
Science (2017) 357 pp. 815-820 [ Pubmed: 28839073 DOI: doi:10.1126/science.aan0327 ]
- Chlorophyll b (907 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Pisum sativum)
- Light harvesting chlorophyll a/b-binding protein lhcb6, cp24 (22 kDa, Protein from Pisum sativum)
- (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)
- M-lhcii and cp24 complexes in the stacked c2s2m2-type psii-lhcii supercomplex from pisum sativum (Complex from Pisum sativum)
- Chlorophyll a (893 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- 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)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a-b binding protein 8, chloroplastic (24 kDa, Protein from Pisum sativum)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 5xno
Q-score: 0.41
Su X, Ma J, Wei X, Cao P, Zhu D, Chang W, Liu Z, Zhang X, Li M
Science (2017) 357 pp. 815-820 [ Pubmed: 28839073 DOI: doi:10.1126/science.aan0327 ]
- Chlorophyll b (907 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Pisum sativum)
- Light harvesting chlorophyll a/b-binding protein lhcb6, cp24 (22 kDa, Protein from Pisum sativum)
- (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 (893 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- 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)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a-b binding protein 8, chloroplastic (24 kDa, Protein from Pisum sativum)
- M-lhcii and cp24 complexes in the unstacked c2s2m2-type psii-lhcii supercomplex from pisum sativum (Complex from Pisum sativum)