Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8j5k
Q-score: 0.504
Zhao S, Shen L, Li X, Tao Q, Li Z, Xu C, Zhou C, Yang Y, Sang M, Han G, Yu LJ, Kuang T, Shen JR, Wang W
Nat Commun (2023) 14 pp. 8164-8164 [ DOI: doi:10.1038/s41467-023-44055-8 Pubmed: 38071196 ]
- Psb34 (2 kDa, Protein from Stephanocyclus meneghinianus)
- Psbc (49 kDa, Protein from Stephanocyclus meneghinianus)
- Psbm (4 kDa, Protein from Stephanocyclus meneghinianus)
- Psbe (8 kDa, Protein from Stephanocyclus meneghinianus)
- Fe (ii) ion (55 Da, Ligand)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Fcpii-h1, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Psbu (10 kDa, Protein from Stephanocyclus meneghinianus)
- Psba (36 kDa, Protein from Stephanocyclus meneghinianus)
- Psby (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbd (37 kDa, Protein from Stephanocyclus meneghinianus)
- Psbi (3 kDa, Protein from Stephanocyclus meneghinianus)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Psbt (3 kDa, Protein from Stephanocyclus meneghinianus)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Fcpii-i, fucoxanthin chlorophyll a/c binding protein (23 kDa, Protein from Stephanocyclus meneghinianus)
- Psbh (7 kDa, Protein from Stephanocyclus meneghinianus)
- 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)
- Bicarbonate ion (61 Da, Ligand)
- Beta-carotene (536 Da, Ligand)
- Fcpii-h2, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Cm-psii-fcpii (Complex from Stephanocyclus meneghinianus)
- Psbw (5 kDa, Protein from Stephanocyclus meneghinianus)
- Psbq' (16 kDa, Protein from Stephanocyclus meneghinianus)
- Psbf (3 kDa, Protein from Stephanocyclus meneghinianus)
- Fcpii-k, fucoxanthin chlorophyll a/c binding protein (13 kDa, Protein from Stephanocyclus meneghinianus)
- Fcpii-j, fucoxanthin chlorophyll a/c binding protein (17 kDa, Protein from Stephanocyclus meneghinianus)
- Psbo (26 kDa, Protein from Stephanocyclus meneghinianus)
- Psbk (4 kDa, Protein from Stephanocyclus meneghinianus)
- Psbz (6 kDa, Protein from Stephanocyclus meneghinianus)
- Chloride ion (35 Da, Ligand)
- Psbv (14 kDa, Protein from Stephanocyclus meneghinianus)
- Psbb (53 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Fcpii-g, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Psbj (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbl (4 kDa, Protein from Stephanocyclus meneghinianus)
- Pheophytin a (871 Da, Ligand)
- Psbx (3 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
Structure of FCP trimer in Cyclotella meneghiniana
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 8j7z
Q-score: 0.591
Zhao S, Shen L, Li X, Tao Q, Li Z, Xu C, Zhou C, Yang Y, Sang M, Han G, Yu LJ, Kuang T, Shen JR, Wang W
Nat Commun (2023) 14 pp. 8164-8164 [ DOI: doi:10.1038/s41467-023-44055-8 Pubmed: 38071196 ]
- Chlorophyll c2 (608 Da, Ligand)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Fcp (19 kDa, Protein from Stephanocyclus meneghinianus)
- Cm-fcp-trimer (Complex from Stephanocyclus meneghinianus)
- Chlorophyll c1 (610 Da, Ligand)
Structure of PSII-FCPII-G/H complex in the PSII-FCPII supercomplex from Cyclotella meneghiniana
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 8w4o
Q-score: 0.531
Zhao S, Shen L, Li X, Tao Q, Li Z, Xu C, Zhou C, Yang Y, Sang M, Han G, Yu LJ, Kuang T, Shen JR, Wang W
Nat Commun (2023) 14 pp. 8164-8164 [ DOI: doi:10.1038/s41467-023-44055-8 Pubmed: 38071196 ]
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Fcpii-h2, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Fcpii-h1, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Chlorophyll a (893 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Fcpii-g, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Cm-psii-fcpii-g/h (Complex from Stephanocyclus meneghinianus)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
Structure of PSII-FCPII-I/J/K complex in the PSII-FCPII supercomplex from Cyclotella meneghiniana
Resolution: 3.48 Å
EM Method: Single-particle
Fitted PDBs: 8w4p
Q-score: 0.394
Zhao S, Shen L, Li X, Tao Q, Li Z, Xu C, Zhou C, Yang Y, Sang M, Han G, Yu LJ, Kuang T, Shen JR, Wang W
Nat Commun (2023) 14 pp. 8164-8164 [ DOI: doi:10.1038/s41467-023-44055-8 Pubmed: 38071196 ]
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Fcpii-k, fucoxanthin chlorophyll a/c binding protein (13 kDa, Protein from Stephanocyclus meneghinianus)
- Cm-psii-fcpii-i/j/k (Complex from Stephanocyclus meneghinianus)
- Fcpii-i, fucoxanthin chlorophyll a/c binding protein (23 kDa, Protein from Stephanocyclus meneghinianus)
- Fcpii-j, fucoxanthin chlorophyll a/c binding protein (17 kDa, Protein from Stephanocyclus meneghinianus)
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8iwh
Q-score: 0.541
Feng Y, Li Z, Li X, Shen L, Liu X, Zhou C, Zhang J, Sang M, Han G, Yang W, Kuang T, Wang W, Shen JR
Sci Adv (2023) 9 pp. eadi8446-eadi8446 [ DOI: doi:10.1126/sciadv.adi8446 Pubmed: 37878698 ]
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Thalassiosira pseudonana)
- Cytochrome b559 subunit beta (4 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii protein d1 (36 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c light-harvesting protein, major type (20 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 5 (21 kDa, Protein from Thalassiosira pseudonana)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Ps ii complex 12 kda extrinsic protein (15 kDa, Protein from Thalassiosira pseudonana)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem ii subunit, psbn. (2 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein j (4 kDa, Protein from Thalassiosira pseudonana)
- Bicarbonate ion (61 Da, Ligand)
- Fucoxanthin chl a/c protein, lhca clade (24 kDa, Protein from Thalassiosira pseudonana)
- 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)
- Beta-carotene (536 Da, Ligand)
- Photosystem ii reaction center protein t (3 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin-chlorophyll a-c binding protein, plastid (21 kDa, Protein from Thalassiosira pseudonana)
- Oxygen-evolving enhancer protein 1 (32 kDa, Protein from Thalassiosira pseudonana)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Photosystem ii reaction center protein h (7 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein l (4 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center m protein, plastid (12 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein z (6 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii subunit, psbw (6 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein i (3 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii cp43 reaction center protein (51 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein k (4 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein-li818 clade (21 kDa, Protein from Thalassiosira pseudonana)
- Chloride ion (35 Da, Ligand)
- Photosystem ii reaction center protein ycf12 (3 kDa, Protein from Thalassiosira pseudonana)
- Chlorophyll c1 (610 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- Photosystem ii psb31 protein domain-containing protein (18 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii d2 protein (39 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii subunit, psbq. (22 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center x protein (3 kDa, Protein from Thalassiosira pseudonana)
- Cytochrome c-550 (17 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 6 (20 kDa, Protein from Thalassiosira pseudonana)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Structure of psii-fcpii supercomplex containing monomeric lhcx and dimeric fcpii from thalassiosira pseudonana (Complex from Thalassiosira pseudonana)
- Pheophytin a (871 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Thalassiosira pseudonana)
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 8j0d
Q-score: 0.498
Feng Y, Li Z, Li X, Shen L, Liu X, Zhou C, Zhang J, Sang M, Han G, Yang W, Kuang T, Wang W, Shen JR
Sci Adv (2023) 9 pp. eadi8446-eadi8446 [ DOI: doi:10.1126/sciadv.adi8446 Pubmed: 37878698 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Fucoxanthin chlorophyll a/c protein 6 (17 kDa, Protein from Thalassiosira pseudonana)
- Chlorophyll c2 (608 Da, Ligand)
- Fucoxanthin-chlorophyll a-c binding protein, plastid (17 kDa, Protein from Thalassiosira pseudonana)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- M1 local refinement in the psii-fcpii from the thalassiosira pseudonana at 3.19 angstrom (Complex from Thalassiosira pseudonana)
- Chlorophyll c1 (610 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Fucoxanthin chl a/c protein, lhca clade (24 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 5 (18 kDa, Protein from Thalassiosira pseudonana)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
Bry-LHCII homotrimer of Bryopsis corticulans
Resolution: 2.55 Å
EM Method: Single-particle
Fitted PDBs: 8hlv
Q-score: 0.608
Li Z, Zhou C, Zhao S, Zhang J, Liu X, Sang M, Qin X, Yang Y, Han G, Kuang T, Shen JR, Wang W
Structure (2023) 31 pp. 1247- [ DOI: doi:10.1016/j.str.2023.08.001 Pubmed: 37633266 ]
- Bryopsis corticulans chlorophyll a/b-type light-harvesting complex ii homotrimer (Complex from Bryopsis corticulans)
- Siphonaxanthin (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)
- Chlorophyll a (893 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb1 (26 kDa, Protein from Bryopsis corticulans)
- Siphonein (781 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
Bry-LHCII heterotrimer of Bryopsis corticulans
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 8hpd
Q-score: 0.571
Li Z, Zhou C, Zhao S, Zhang J, Liu X, Sang M, Qin X, Yang Y, Han G, Kuang T, Shen JR, Wang W
Structure (2023) 31 pp. 1247-1258.e3 [ DOI: doi:10.1016/j.str.2023.08.001 Pubmed: 37633266 ]
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb3 (27 kDa, Protein from Bryopsis corticulans)
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb2 (27 kDa, Protein from Bryopsis corticulans)
- Siphonaxanthin (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)
- Chlorophyll a (893 Da, Ligand)
- Bryopsis corticulans chlorophyll a/b-type light-harvesting complex ii heterotrimer (Complex from Bryopsis corticulans)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Siphonein (781 Da, Ligand)
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb1 (26 kDa, Protein from Bryopsis corticulans)
- Chlorophyll b (907 Da, Ligand)