PSI-FCPI-L in Thalassiosira pseudonana
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8zeh
Q-score: 0.566
Feng Y, Li Z, Yang Y, Shen L, Li X, Liu X, Zhang X, Zhang J, Ren F, Wang Y, Liu C, Han G, Wang X, Kuang T, Shen JR, Wang W
J Integr Plant Biol (2024) [ Pubmed: 39670505 DOI: doi:10.1111/jipb.13816 ]
- Pt17531-like protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (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)
- Tp-lhcr18 (16 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Tp-psar (9 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Chlorophyll c1 (610 Da, Ligand)
- 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)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Fucoxanthin chl a/c light-harvesting protein, major type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Tp-lhcr20 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c light-harvesting protein (23 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Beta-carotene (536 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 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)
- Tp-psi-fcpi-l (Complex from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit xi (15 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, lhcr type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c light-harvesting protein (19 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit psa29 (13 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Phylloquinone (450 Da, Ligand)
- Tp-redcap (20 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c light-harvesting protein, lhcr type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c-binding protein lhcq8 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (19 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Iron/sulfur cluster (351 Da, Ligand)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ii (14 kDa, Protein from Thalassiosira pseudonana CCMP1335)
Tp-PSI-FCPI-S in Thalassiosira pseudonana
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8zet
Q-score: 0.485
Feng Y, Li Z, Yang Y, Shen L, Li X, Liu X, Zhang X, Zhang J, Ren F, Wang Y, Liu C, Han G, Wang X, Kuang T, Shen JR, Wang W
J Integr Plant Biol (2024) [ Pubmed: 39670505 DOI: doi:10.1111/jipb.13816 ]
- Pt17531-like protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (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)
- Tp-psar (9 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Chlorophyll c1 (610 Da, Ligand)
- 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)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, major type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Beta-carotene (536 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 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)
- Photosystem i reaction center subunit xi (15 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit psa29 (13 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Tp-psi-fcpi-s (Complex from Thalassiosira pseudonana CCMP1335)
- Phylloquinone (450 Da, Ligand)
- Tp-redcap (20 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c-binding protein lhcq8 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Iron/sulfur cluster (351 Da, Ligand)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ii (14 kDa, Protein from Thalassiosira pseudonana CCMP1335)
Structure of PSII-ACPII supercomplex from cryptophyte algae
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 8wb4
Q-score: 0.539
Mao Z, Li X, Li Z, Shen L, Li X, Yang Y, Wang W, Kuang T, Shen JR, Han G
Nat Commun (2024) 15 pp. 4535-4535 [ Pubmed: 38806516 DOI: doi:10.1038/s41467-024-48878-x ]
- Acpii-6 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center x protein (4 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Acpii-5 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem ii d2 protein (39 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein z (6 kDa, Protein from Chroomonas placoidea)
- Cytochrome b559 subunit beta (4 kDa, Protein from Chroomonas placoidea)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Photosystem ii cp43 reaction center protein (50 kDa, Protein from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(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-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol (564 Da, Ligand)
- Acpii-3 (24 kDa, Protein from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- Acpii-2 (23 kDa, Protein from Chroomonas placoidea)
- 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)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem ii reaction center protein r (2 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein i (4 kDa, Protein from Chroomonas placoidea)
- Acpii-4 (23 kDa, Protein from Chroomonas placoidea)
- Ccpii-s (30 kDa, Protein from Chroomonas placoidea)
- Structure of psii-acpii supercomplex from cryptophyte algae (Complex from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (550 Da, Ligand)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Chroomonas placoidea)
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Chroomonas placoidea)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem ii reaction center protein t (3 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein w (11 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein j (3 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Acpii-1 (25 kDa, Protein from Chroomonas placoidea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem ii reaction center protein ycf12 (3 kDa, Protein from Chroomonas placoidea)
- Photosystem ii cytochrome c550 (17 kDa, Protein from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(1~{r},4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- Photosystem ii reaction center protein k (5 kDa, Protein from Chroomonas placoidea)
- Chlorophyll c2 (608 Da, Ligand)
- Photosystem ii reaction center protein o (34 kDa, Protein from Chroomonas placoidea)
- Pheophytin a (871 Da, Ligand)
- Photosystem ii reaction center protein q (1 kDa, Protein from Chroomonas placoidea)
- Photosystem ii protein d1 (39 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein g (5 kDa, Protein from Chroomonas placoidea)
- Chloride ion (35 Da, Ligand)
- Bicarbonate ion (61 Da, Ligand)
- Photosystem ii reaction center m (11 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein l (4 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein h (7 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein u (15 kDa, Protein from Chroomonas placoidea)
Structure of ACPII-CCPII from cryptophyte algae
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8xkl
Q-score: 0.49
Mao Z, Li X, Li Z, Shen L, Li X, Yang Y, Wang W, Kuang T, Shen JR, Han G
Nat Commun (2024) 15 pp. 4535-4535 [ Pubmed: 38806516 DOI: doi:10.1038/s41467-024-48878-x ]
- Acpii-6 (23 kDa, Protein from Chroomonas placoidea)
- Acpii-1 (25 kDa, Protein from Chroomonas placoidea)
- Acpii-4 (23 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Acpii-5 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem ii reaction center protein g (5 kDa, Protein from Chroomonas placoidea)
- Ccpii-s (30 kDa, Protein from Chroomonas placoidea)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (550 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(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-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol (564 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(1~{r},4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Structure of acpii-ccpii from cryptophyte algae (Complex from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Acpii-3 (24 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Acpii-2 (23 kDa, Protein from Chroomonas placoidea)
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 [ Pubmed: 38071196 DOI: doi:10.1038/s41467-023-44055-8 ]
- Psby (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbk (4 kDa, Protein from Stephanocyclus meneghinianus)
- Psbw (5 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)
- Psbz (6 kDa, Protein from Stephanocyclus meneghinianus)
- Chlorophyll a (893 Da, Ligand)
- Psb34 (2 kDa, Protein from Stephanocyclus meneghinianus)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Psbo (26 kDa, Protein from Stephanocyclus meneghinianus)
- Cm-psii-fcpii (Complex from Stephanocyclus meneghinianus)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Fcpii-i, fucoxanthin chlorophyll a/c binding protein (23 kDa, Protein from Stephanocyclus meneghinianus)
- (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)
- Psbx (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbv (14 kDa, Protein from Stephanocyclus meneghinianus)
- Fcpii-g, fucoxanthin chlorophyll a/c binding protein (18 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)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Psbd (37 kDa, Protein from Stephanocyclus meneghinianus)
- Psbt (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psba (36 kDa, Protein from Stephanocyclus meneghinianus)
- Beta-carotene (536 Da, Ligand)
- Psbf (3 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 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)
- Psbm (4 kDa, Protein from Stephanocyclus meneghinianus)
- Psbq' (16 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Fcpii-h2, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Psbe (8 kDa, Protein from Stephanocyclus meneghinianus)
- Fe (ii) ion (55 Da, Ligand)
- Fcpii-h1, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- Psbc (49 kDa, Protein from Stephanocyclus meneghinianus)
- Pheophytin a (871 Da, Ligand)
- Psbj (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbi (3 kDa, Protein from Stephanocyclus meneghinianus)
- Psbl (4 kDa, Protein from Stephanocyclus meneghinianus)
- Psbu (10 kDa, Protein from Stephanocyclus meneghinianus)
- Chloride ion (35 Da, Ligand)
- Fcpii-k, fucoxanthin chlorophyll a/c binding protein (13 kDa, Protein from Stephanocyclus meneghinianus)
- Bicarbonate ion (61 Da, Ligand)
- Psbb (53 kDa, Protein from Stephanocyclus meneghinianus)
- Fcpii-j, fucoxanthin chlorophyll a/c binding protein (17 kDa, Protein from Stephanocyclus meneghinianus)
- Psbh (7 kDa, Protein from Stephanocyclus meneghinianus)
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 [ Pubmed: 38071196 DOI: doi:10.1038/s41467-023-44055-8 ]
- Chlorophyll a (893 Da, Ligand)
- Cm-fcp-trimer (Complex from Stephanocyclus meneghinianus)
- Fcp (19 kDa, Protein from Stephanocyclus meneghinianus)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll c1 (610 Da, Ligand)
- 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)
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 [ Pubmed: 38071196 DOI: doi:10.1038/s41467-023-44055-8 ]
- Cm-psii-fcpii-g/h (Complex from Stephanocyclus meneghinianus)
- 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)
- Chlorophyll a (893 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 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)
- 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)
- Fcpii-h1, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
- (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)
- Fcpii-g, fucoxanthin chlorophyll a/c binding protein (18 kDa, Protein from Stephanocyclus meneghinianus)
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 [ Pubmed: 38071196 DOI: doi:10.1038/s41467-023-44055-8 ]
- Fcpii-i, fucoxanthin chlorophyll a/c binding protein (23 kDa, Protein from Stephanocyclus meneghinianus)
- Chlorophyll a (893 Da, Ligand)
- Fcpii-k, fucoxanthin chlorophyll a/c binding protein (13 kDa, Protein from Stephanocyclus meneghinianus)
- (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-j, fucoxanthin chlorophyll a/c binding protein (17 kDa, Protein from Stephanocyclus meneghinianus)
- Cm-psii-fcpii-i/j/k (Complex from Stephanocyclus meneghinianus)
- (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)
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 ]
- Photosystem ii reaction center m protein, plastid (12 kDa, Protein from Thalassiosira pseudonana)
- (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)
- Structure of psii-fcpii supercomplex containing monomeric lhcx and dimeric fcpii from thalassiosira pseudonana (Complex from Thalassiosira pseudonana)
- Ps ii complex 12 kda extrinsic protein (15 kDa, Protein from Thalassiosira pseudonana)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Photosystem ii cp43 reaction center protein (51 kDa, Protein from Thalassiosira pseudonana)
- Chlorophyll c1 (610 Da, Ligand)
- Ca-mn4-o5 cluster (339 Da, Ligand)
- 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 Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 6 (20 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 5 (21 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin-chlorophyll a-c binding protein, plastid (21 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii psb31 protein domain-containing protein (18 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)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Dodecyl-alpha-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 chl a/c protein, lhca clade (24 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein l (4 kDa, Protein from Thalassiosira pseudonana)
- Beta-carotene (536 Da, Ligand)
- Fucoxanthin chlorophyll a/c protein-li818 clade (21 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii protein d1 (36 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii cp47 reaction center protein (56 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein k (4 kDa, Protein from Thalassiosira pseudonana)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 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)
- Photosystem ii reaction center protein ycf12 (3 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center x protein (3 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein t (3 kDa, Protein from Thalassiosira pseudonana)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem ii reaction center protein j (4 kDa, Protein from Thalassiosira pseudonana)
- Oxygen-evolving enhancer protein 1 (32 kDa, Protein from Thalassiosira pseudonana)
- Fe (ii) ion (55 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- Photosystem ii subunit, psbw (6 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c light-harvesting protein, major type (20 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii d2 protein (39 kDa, Protein from Thalassiosira pseudonana)
- Pheophytin a (871 Da, Ligand)
- Cytochrome c-550 (17 kDa, Protein from Thalassiosira pseudonana)
- Cytochrome b559 subunit alpha (9 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein i (3 kDa, Protein from Thalassiosira pseudonana)
- Chloride ion (35 Da, Ligand)
- Photosystem ii subunit, psbq. (22 kDa, Protein from Thalassiosira pseudonana)
- Bicarbonate ion (61 Da, Ligand)
- Cytochrome b559 subunit beta (4 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii subunit, psbn. (2 kDa, Protein from Thalassiosira pseudonana)
- Photosystem ii reaction center protein z (6 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 ]
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Fucoxanthin chlorophyll a/c protein 5 (18 kDa, Protein from Thalassiosira pseudonana)
- Fucoxanthin chlorophyll a/c protein 6 (17 kDa, Protein from Thalassiosira pseudonana)
- M1 local refinement in the psii-fcpii from the thalassiosira pseudonana at 3.19 angstrom (Complex from Thalassiosira pseudonana)
- Chlorophyll a (893 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Fucoxanthin chl a/c protein, lhca clade (24 kDa, Protein from Thalassiosira pseudonana)
- Chlorophyll c1 (610 Da, Ligand)
- Fucoxanthin-chlorophyll a-c binding protein, plastid (17 kDa, Protein from Thalassiosira pseudonana)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 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)
- (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)