Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k9f
Q-score: 0.527
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) [ Pubmed: 38299372 DOI: doi:10.1093/plcell/koae029 ]
- Hypothetical protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Iron/sulfur cluster (351 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe3-s4 cluster (295 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8x2j
Q-score: 0.561
Xin J, Min Z, Yu L, Yuan X, Liu A, Wu W, Zhang X, He H, Wu J, Xin Y, Blankenship RE, Tian C, Xu X
Plant Cell (2024) [ Pubmed: 38299372 DOI: doi:10.1093/plcell/koae029 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Unknown (4 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe3-s4 cluster (295 Da, Ligand)
- 2-heptyl-4-hydroxy quinoline n-oxide (259 Da, Ligand)
- Alternative complex iii (Complex from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-pentadecanoyloxy-propyl] pentadecanoate (663 Da, Ligand)
- Polysulphide reductase nrfd (55 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c domain-containing protein (23 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- [(2~{r})-3-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-2-tetradecanoyloxy-propyl] hexadecanoate (663 Da, Ligand)
- Quinol:cytochrome c oxidoreductase quinone-binding subunit 2 (45 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Cytochrome c7-like domain-containing protein (25 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Heme c (618 Da, Ligand)
- Quinol:cytochrome c oxidoreductase membrane protein (19 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Fe-s-cluster-containing hydrogenase components 1-like protein (113 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- Uncharacterized protein (12 kDa, Protein from Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl))
- 1,3-bis(13-methyltetradecanoyloxy)propan-2-yl pentadecanoate (765 Da, Ligand)
Cryo-EM structure of cryptophyte photosystem I
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 7y7b
Q-score: 0.607
Zhao LS, Wang P, Li K, Zhang QB, He FY, Li CY, Su HN, Chen XL, Liu LN, Zhang YZ
Plant Cell (2023) 35 pp. 2449-2463 [ Pubmed: 36943796 DOI: doi:10.1093/plcell/koad087 ]
- Acpi-8 (23 kDa, Protein from Chroomonas placoidea)
- Psao (10 kDa, Protein from Chroomonas placoidea)
- Unk1 (13 kDa, Protein from Chroomonas placoidea)
- Acpi-13/10 (22 kDa, Protein from Chroomonas placoidea)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Chroomonas placoidea)
- Acpi-12 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-1 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i of cryptophyte (890 kDa, Complex from Chroomonas placoidea)
- Psar (13 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chroomonas placoidea)
- Acpi-7 (24 kDa, Protein from Chroomonas placoidea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit iii (20 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chroomonas placoidea)
- Acpi-s (25 kDa, Protein from Chroomonas placoidea)
- Acpi-3 (24 kDa, Protein from Chroomonas placoidea)
- Acpi-6 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-14 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-11 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-4 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-2 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 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-(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)
- Dodecyl-alpha-d-maltoside (510 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)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Acpi-9 (27 kDa, Protein from Chroomonas placoidea)
- Acpi-5 (24 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 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)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Chroomonas placoidea)
Cryo-EM structure of cryptophyte photosystem I
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 7y8a
Q-score: 0.581
Zhao LS, Wang P, Li K, Zhang QB, He FY, Li CY, Su HN, Chen XL, Liu LN, Zhang YZ
Plant Cell (2023) 35 pp. 2449-2463 [ Pubmed: 36943796 DOI: doi:10.1093/plcell/koad087 ]
- Acpi-8 (23 kDa, Protein from Chroomonas placoidea)
- Unk1 (13 kDa, Protein from Chroomonas placoidea)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Chroomonas placoidea)
- Acpi-12 (23 kDa, Protein from Chroomonas placoidea)
- Acpi-1 (23 kDa, Protein from Chroomonas placoidea)
- Psar (13 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Chroomonas placoidea)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Chroomonas placoidea)
- Acpi-7 (24 kDa, Protein from Chroomonas placoidea)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Chlorophyll c2 (608 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Photosystem i reaction center subunit iii (20 kDa, Protein from Chroomonas placoidea)
- (6'r,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene (536 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Chroomonas placoidea)
- Acpi-s (25 kDa, Protein from Chroomonas placoidea)
- Acpi-3 (24 kDa, Protein from Chroomonas placoidea)
- Acpi-6 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-14 (23 kDa, Protein from Chroomonas placoidea)
- Psao (16 kDa, Protein from Chroomonas placoidea)
- Acpi-13 (22 kDa, Protein from Chroomonas placoidea)
- Acpi-4 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i of cryptophyte (Complex from Chroomonas placoidea)
- Acpi-2 (23 kDa, Protein from Chroomonas placoidea)
- Photosystem i iron-sulfur center (8 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Chroomonas placoidea)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 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-(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)
- Dodecyl-alpha-d-maltoside (510 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)
- Iron/sulfur cluster (351 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Acpi-5 (24 kDa, Protein from Chroomonas placoidea)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 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)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Chroomonas placoidea)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Chroomonas placoidea)
Cryo-EM structure of Arabidopsis thaliana Complex-I (peripheral arm)
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 7aqr
Q-score: 0.554
Klusch N, Senkler J, Yildiz O, Kuhlbrandt W, Braun HP
Plant Cell (2021) 33 pp. 2072-2091 [ Pubmed: 33768254 DOI: doi:10.1093/plcell/koab092 ]
- Probable nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5, mitochondrial (19 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 3 (22 kDa, Protein from Mouse-ear cress)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Furry (15 kDa, Protein from Mouse-ear cress)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Arabidopsis complex i - peripheral arm (Complex from Arabidopsis thaliana)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (24 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 1, mitochondrial (81 kDa, Protein from Mouse-ear cress)
- Probable nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (18 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from Mouse-ear cress)
- Zinc ion (65 Da, Ligand)
- Acyl carrier protein 2, mitochondrial (14 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (28 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (12 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (17 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8-a, mitochondrial (25 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (53 kDa, Protein from Mouse-ear cress)
- Nadh dehydrogenase subunit 7 (45 kDa, Protein from Mouse-ear cress)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial (43 kDa, Protein from Mouse-ear cress)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-a (16 kDa, Protein from Mouse-ear cress)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (15 kDa, Protein from Mouse-ear cress)
Cryo-EM structure of Polytomella Complex-I (peripheral arm)
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 7arc
Q-score: 0.563
Klusch N, Senkler J, Yildiz O, Kuhlbrandt W, Braun HP
Plant Cell (2021) 33 pp. 2072-2091 [ Pubmed: 33768254 DOI: doi:10.1093/plcell/koab092 ]
- Psst (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 13 kda (14 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B14.5a (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 24 kda (30 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 51 kda (51 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Polytomella complex i - peripheral arm (Complex from Polytomella sp. Pringsheim 198.80)
- Nd9 (25 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Tyky (26 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- B13 (17 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Sdap2 (13 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Zinc ion (65 Da, Ligand)
- 39 kda (41 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Water (18 Da, Ligand)
- B14 (16 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 75 kda (77 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B8 (10 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- B17.2 (18 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- Flavin mononucleotide (456 Da, Ligand)
- Nd7 (45 kDa, Protein from Polytomella sp. Pringsheim 198.80)
- 18 kda (20 kDa, Protein from Polytomella sp. Pringsheim 198.80)