Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in pyraclostrobin-bound state
Resolution: 2.42 Å
EM Method: Single-particle
Fitted PDBs: 8yhq
Q-score: 0.599
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- Quinol--cytochrome-c reductase (27 kDa, Protein from Saccharomyces cerevisiae)
- Methyl ~{n}-[2-[[1-(4-chlorophenyl)pyrazol-3-yl]oxymethyl]phenyl]-~{n}-methoxy-carbamate (387 Da, Ligand)
- (1r)-2-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]ethyl octadecanoate (593 Da, Ligand)
- Cytochrome b-c1 complex subunit 8 (10 kDa, Protein from Saccharomyces cerevisiae)
- (1r)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate (592 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (20 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 2, mitochondrial (38 kDa, Protein from Saccharomyces cerevisiae)
- (5s,11r)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate (634 Da, Ligand)
- (2r,5s,11r,14r)-5,8,11-trihydroxy-2-(nonanoyloxy)-5,11-dioxido-16-oxo-14-[(propanoyloxy)methyl]-4,6,10,12,15-pentaoxa-5,11-diphosphanonadec-1-yl undecanoate (834 Da, Ligand)
- Saccharomyces cerevisiae bc1 complex (Complex from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 10, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- (2r)-3-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(tetradecanoyloxy)propyl octadecanoate (691 Da, Ligand)
- Qcr6 isoform 1 (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- 5-(3,7,11,15,19,23-hexamethyl-tetracosa-2,6,10,14,18,22-hexaenyl)-2,3-dimethoxy-6-methyl-benzene-1,4-diol (592 Da, Ligand)
- Cytochrome b (43 kDa, Protein from Saccharomyces cerevisiae)
- (1r)-2-(dodecanoyloxy)-1-[(phosphonooxy)methyl]ethyl tetradecanoate (564 Da, Ligand)
- Cytochrome b-c1 complex subunit 7 (14 kDa, Protein from Saccharomyces cerevisiae)
- Cor1 isoform 1 (47 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in YF23694-bound state
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 8yin
Q-score: 0.53
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- (5s,11r)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate (634 Da, Ligand)
- (1r)-2-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]ethyl octadecanoate (593 Da, Ligand)
- 5-(3,7,11,15,19,23-hexamethyl-tetracosa-2,6,10,14,18,22-hexaenyl)-2,3-dimethoxy-6-methyl-benzene-1,4-diol (592 Da, Ligand)
- (2r)-3-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(tetradecanoyloxy)propyl octadecanoate (691 Da, Ligand)
- Cor1 isoform 1 (47 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 7 (14 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cryo-em structure of saccharomyces cerevisiae bc1 complex in yf23694-bound state (Complex from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 2, mitochondrial (38 kDa, Protein from Saccharomyces cerevisiae)
- Qcr6 isoform 1 (8 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 8 (10 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b (43 kDa, Protein from Saccharomyces cerevisiae)
- 1-[2-[(4,6-dimethyl-1,3-benzothiazol-2-yl)sulfanylmethyl]-3-methyl-phenyl]-4-methyl-1,2,3,4-tetrazol-5-one (397 Da, Ligand)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Saccharomyces cerevisiae)
- (1r)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate (592 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (20 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 10, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- (2r,5s,11r,14r)-5,8,11-trihydroxy-2-(nonanoyloxy)-5,11-dioxido-16-oxo-14-[(propanoyloxy)methyl]-4,6,10,12,15-pentaoxa-5,11-diphosphanonadec-1-yl undecanoate (834 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
Cryo-EM structure of Saccharomyces cerevisiae bc1 complex in Metyltetraprole-bound state
Resolution: 2.52 Å
EM Method: Single-particle
Fitted PDBs: 8zmt
Q-score: 0.621
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- (1r)-2-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]ethyl octadecanoate (593 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome b-c1 complex subunit 8 (10 kDa, Protein from Saccharomyces cerevisiae)
- (1r)-2-(phosphonooxy)-1-[(tridecanoyloxy)methyl]ethyl pentadecanoate (592 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (20 kDa, Protein from Saccharomyces cerevisiae)
- Cryo-em structure of saccharomyces cerevisiae bc1 complex in metyltetraprole-bound state (Complex from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 2, mitochondrial (38 kDa, Protein from Saccharomyces cerevisiae)
- (5s,11r)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate (634 Da, Ligand)
- (2r,5s,11r,14r)-5,8,11-trihydroxy-2-(nonanoyloxy)-5,11-dioxido-16-oxo-14-[(propanoyloxy)methyl]-4,6,10,12,15-pentaoxa-5,11-diphosphanonadec-1-yl undecanoate (834 Da, Ligand)
- Cytochrome b-c1 complex subunit 10, mitochondrial (5 kDa, Protein from Saccharomyces cerevisiae)
- (2r)-3-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(tetradecanoyloxy)propyl octadecanoate (691 Da, Ligand)
- Cytochrome b-c1 complex subunit 9, mitochondrial (6 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Saccharomyces cerevisiae)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome b-c1 complex subunit 6, mitochondrial (8 kDa, Protein from Saccharomyces cerevisiae)
- 5-(3,7,11,15,19,23-hexamethyl-tetracosa-2,6,10,14,18,22-hexaenyl)-2,3-dimethoxy-6-methyl-benzene-1,4-diol (592 Da, Ligand)
- Cytochrome b (43 kDa, Protein from Saccharomyces cerevisiae)
- Cytochrome b-c1 complex subunit 7 (14 kDa, Protein from Saccharomyces cerevisiae)
- 1-[2-[[1-(4-chlorophenyl)pyrazol-3-yl]oxymethyl]-3-methyl-phenyl]-4-methyl-1,2,3,4-tetrazol-5-one (396 Da, Ligand)
- Cor1 isoform 1 (47 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM structure of pyraclostrobin-bound porcine bc1 complex
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8zos
Q-score: 0.566
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- Methyl ~{n}-[2-[[1-(4-chlorophenyl)pyrazol-3-yl]oxymethyl]phenyl]-~{n}-methoxy-carbamate (387 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Heme c (618 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome b (42 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 10 (6 kDa, Protein from Sus scrofa)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Complex iii subunit 9 (7 kDa, Protein from Sus scrofa)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (21 kDa, Protein from Sus scrofa)
- Cryo-em structure of pyraclostrobin-bound porcine bc1 complex (Complex from Sus scrofa)
- Cytochrome b-c1 complex subunit 7 (13 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 8 (9 kDa, Protein from Sus scrofa)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 6 (7 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 1, mitochondrial (49 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (5 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 2, mitochondrial (44 kDa, Protein from Sus scrofa)
Cryo-EM structure of Metyltetraprole-bound porcine bc1 complex
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8zow
Q-score: 0.515
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- Cytochrome b-c1 complex subunit 8 (9 kDa, Protein from Sus scrofa)
- Heme c (618 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Complex iii subunit 9 (7 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 7 (13 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 2, mitochondrial (44 kDa, Protein from Sus scrofa)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Sus scrofa)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome b-c1 complex subunit 6 (7 kDa, Protein from Sus scrofa)
- Cryo-em structure of metyltetraprole-bound porcine bc1 complex (Complex from Sus scrofa)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome b-c1 complex subunit 10 (6 kDa, Protein from Sus scrofa)
- Cytochrome b (42 kDa, Protein from Sus scrofa)
- 1-[2-[[1-(4-chlorophenyl)pyrazol-3-yl]oxymethyl]-3-methyl-phenyl]-4-methyl-1,2,3,4-tetrazol-5-one (396 Da, Ligand)
- Cytochrome b-c1 complex subunit 1, mitochondrial (49 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (5 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (21 kDa, Protein from Sus scrofa)
- Protoporphyrin ix containing fe (616 Da, Ligand)
Cryo-EM structure of YF23694-bound porcine bc1 complex
Resolution: 2.44 Å
EM Method: Single-particle
Fitted PDBs: 8zp0
Q-score: 0.578
Wang YX, Ye Y, Li ZW, Cui GR, Shi XX, Dong Y, Jiang JJ, Sun JY, Guan ZW, Zhang N, Wu QY, Wang F, Zhu XL, Yang GF
J Am Chem Soc (2024) 146 pp. 33903-33913 [ DOI: doi:10.1021/jacs.4c12595 Pubmed: 39601138 ]
- Cytochrome b-c1 complex subunit 8 (9 kDa, Protein from Sus scrofa)
- Cryo-em structure of yf23694-bound porcine bc1 complex (Complex from Sus scrofa)
- Heme c (618 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Complex iii subunit 9 (7 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 7 (13 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 2, mitochondrial (44 kDa, Protein from Sus scrofa)
- Cytochrome c1, heme protein, mitochondrial (27 kDa, Protein from Sus scrofa)
- Cardiolipin (1 kDa, Ligand)
- Cytochrome b-c1 complex subunit 6 (7 kDa, Protein from Sus scrofa)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 1-[2-[(4,6-dimethyl-1,3-benzothiazol-2-yl)sulfanylmethyl]-3-methyl-phenyl]-4-methyl-1,2,3,4-tetrazol-5-one (397 Da, Ligand)
- Cytochrome b-c1 complex subunit 10 (6 kDa, Protein from Sus scrofa)
- Cytochrome b (42 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit 1, mitochondrial (49 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (5 kDa, Protein from Sus scrofa)
- Cytochrome b-c1 complex subunit rieske, mitochondrial (21 kDa, Protein from Sus scrofa)
- Protoporphyrin ix containing fe (616 Da, Ligand)
human KCNQ2-CaM-Ebio1 complex in the presence of PIP2
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8ijk
Q-score: 0.383
Zhang S, Ma D, Wang K, Li Y, Yang Z, Li X, Li J, He J, Mei L, Ye Y, Chen Z, Shen J, Hou P, Guo J, Zhang Q, Yang H
Nat Chem Biol (2024) 20 pp. 847-856 [ DOI: doi:10.1038/s41589-023-01515-y Pubmed: 38167918 ]
- Potassium voltage-gated channel subfamily kqt member 2 (73 kDa, Protein from Homo sapiens)
- Human kcnq2-cam-ebio1 complex in the presence of pip2 (Complex from Homo sapiens)
- N-(1,2-dihydroacenaphthylen-5-yl)-4-fluoranyl-benzamide (291 Da, Ligand)
- Calmodulin-1 (16 kDa, Protein from Homo sapiens)
human KCNQ2-CaM-Ebio1-S1 complex in the presence of PIP2
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8x43
Q-score: 0.328
Zhang S, Ma D, Wang K, Li Y, Yang Z, Li X, Li J, He J, Mei L, Ye Y, Chen Z, Shen J, Hou P, Guo J, Zhang Q, Yang H
Nat Chem Biol (2024) 20 pp. 847-856 [ DOI: doi:10.1038/s41589-023-01515-y Pubmed: 38167918 ]
- N-(4-azanyl-1,2-dihydroacenaphthylen-5-yl)-4-fluoranyl-benzamide (306 Da, Ligand)
- Potassium voltage-gated channel subfamily kqt member 2 (73 kDa, Protein from Homo sapiens)
- Calmodulin-1 (16 kDa, Protein from Homo sapiens)
- Human kcnq2-cam-ebio1-s1 complex in the presence of pip2 (Cellular component from Homo sapiens)
Cryo-EM structure of ISW1a-dinucleosome
Resolution: 5.4 Å
EM Method: Single-particle
Fitted PDBs: 7x3t
Q-score: 0.192
Li L, Chen K, Sia Y, Hu P, Ye Y, Chen Z
Nat Struct Mol Biol (2024) 31 pp. 266-274 [ Pubmed: 38177688 DOI: doi:10.1038/s41594-023-01174-6 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Iswi one complex protein 3 (72 kDa, Protein from Saccharomyces cerevisiae S288C)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Dna (343-mer) (108 kDa, DNA from synthetic construct)
- Isw1a-dinucleosome (392 MDa, Complex from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna(343-mer) (109 kDa, DNA from synthetic construct)
Cryo-EM structure of IOC3-N2 nucleosome
Resolution: 3.09 Å
EM Method: Single-particle
Fitted PDBs: 7x3v
Q-score: 0.502
Li L, Chen K, Sia Y, Hu P, Ye Y, Chen Z
Nat Struct Mol Biol (2024) 31 pp. 266-274 [ DOI: doi:10.1038/s41594-023-01174-6 Pubmed: 38177688 ]
- N2 nucleosome (Complex)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Ioc3 (Complex)
- Iswi one complex protein 3 (72 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (Complex from Saccharomyces cerevisiae S288c)
- Ioc3-n2 nucleosome (392 MDa, Complex from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (146-mer) (45 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (146-mer) (45 kDa, DNA from synthetic construct)
- Histone h3 (15 kDa, Protein from Xenopus laevis)