Cryo-EM structure of CBF1-CCAN bound topologically to a centromeric CENP-A nucleosome
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8ow0
Q-score: 0.2
Dendooven T, Zhang Z, Yang J, McLaughlin SH, Schwab J, Scheres SHW, Yatskevich S, Barford D
Sci Adv (2023) 9 pp. eadg7480-eadg7480 [ Pubmed: 37506202 DOI: doi:10.1126/sciadv.adg7480 ]
- Inner kinetochore subunit nkp2 (17 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit nkp1 (27 kDa, Protein from Saccharomyces cerevisiae)
- C0n3 dna (47 kDa, DNA from Saccharomyces cerevisiae)
- Inner kinetochore subunit ctf3 (84 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit chl4 (52 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit okp1 (47 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2b.1 (14 kDa, Protein from Saccharomyces cerevisiae)
- A complex of cbf1-ccan bound to centromeric c0n3 dna (Complex from Saccharomyces cerevisiae)
- Inner kinetochore subunit wip1 (10 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit cnn1 (41 kDa, Protein from Saccharomyces cerevisiae)
- Histone h3-like centromeric protein cse4 (26 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit iml3 (28 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm21 (43 kDa, Protein from Saccharomyces cerevisiae)
- Centromere-binding protein 1 (39 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm22 (27 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2a.1 (14 kDa, Protein from Saccharomyces cerevisiae)
- C0n3 dna (47 kDa, DNA from Saccharomyces cerevisiae)
- Inner kinetochore subunit ame1 (37 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit ctf19 (42 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm16 (21 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM structure of the yeast Inner kinetochore bound to a CENP-A nucleosome.
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8ow1
Q-score: 0.165
Dendooven T, Zhang Z, Yang J, McLaughlin SH, Schwab J, Scheres SHW, Yatskevich S, Barford D
Sci Adv (2023) 9 pp. eadg7480-eadg7480 [ Pubmed: 37506202 DOI: doi:10.1126/sciadv.adg7480 ]
- Suppressor of kinetochore protein 1 (22 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit nkp2 (17 kDa, Protein from Saccharomyces cerevisiae)
- Centromere dna-binding protein complex cbf3 subunit b (71 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit nkp1 (27 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit ctf3 (84 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit chl4 (52 kDa, Protein from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit okp1 (47 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2b.1 (14 kDa, Protein from Saccharomyces cerevisiae)
- A complex of cbf1-ccan bound to centromeric c0n3 dna (Complex from Saccharomyces cerevisiae)
- Centromere dna-binding protein complex cbf3 subunit c (56 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit wip1 (10 kDa, Protein from Saccharomyces cerevisiae)
- C0n3 (47 kDa, DNA from Saccharomyces cerevisiae)
- Inner kinetochore subunit cnn1 (41 kDa, Protein from Saccharomyces cerevisiae)
- Histone h3-like centromeric protein cse4 (26 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit iml3 (28 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm21 (43 kDa, Protein from Saccharomyces cerevisiae)
- C0n3 (47 kDa, DNA from Saccharomyces cerevisiae)
- Centromere-binding protein 1 (39 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm22 (27 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2a.1 (14 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit ame1 (37 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit ctf19 (42 kDa, Protein from Saccharomyces cerevisiae)
- Inner kinetochore subunit mcm16 (21 kDa, Protein from Saccharomyces cerevisiae)
Structure of the human CCAN CENP-A alpha-satellite complex
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7pii
Q-score: 0.573
Yatskevich S, Muir KW, Bellini D, Zhang Z, Yang J, Tischer T, Predin M, Dendooven T, McLaughlin SH, Barford D
Science (2022) 376 pp. 844-852 [ DOI: doi:10.1126/science.abn3810 Pubmed: 35420891 ]
- Cenp-a nucleosome in complex with cenp-c (Complex)
- Dna (122-mer) (52 kDa, DNA from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (16 kDa, Protein from Homo sapiens)
- Histone h3-like centromeric protein a (16 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Centromere protein c (61 kDa, Protein from Homo sapiens)
- Dna (123-mer) (52 kDa, DNA from Homo sapiens)
Structure of the human CCAN CENP-A alpha-satellite complex
Resolution: 12.0 Å
EM Method: Single-particle
Fitted PDBs: 7ywx
Q-score: 0.054
Yatskevich S, Muir KW, Bellini D, Zhang Z, Yang J, Tischer T, Predin M, Dendooven T, McLaughlin SH, Barford D
Science (2022) 376 pp. 844-852 [ DOI: doi:10.1126/science.abn3810 Pubmed: 35420891 ]
- Centromere protein n (39 kDa, Protein from Homo sapiens)
- Centromere protein q (30 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
- Centromere protein c (61 kDa, Protein from Homo sapiens)
- Centromere protein u (47 kDa, Protein from Homo sapiens)
- Centromere protein l (39 kDa, Protein from Homo sapiens)
- Ccan-cenp-a inner centromere complex (Complex)
- Centromere protein k (31 kDa, Protein from Homo sapiens)
- Centromere protein i (86 kDa, Protein from Homo sapiens)
- Centromere protein p (33 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
- Centromere protein w (10 kDa, Protein from Homo sapiens)
- Centromere protein h (28 kDa, Protein from Homo sapiens)
- Centromere protein o (33 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Histone h3-like centromeric protein a (16 kDa, Protein from Homo sapiens)
- Centromere protein s (15 kDa, Protein from Homo sapiens)
- Centromere protein t (60 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Centromere protein m (19 kDa, Protein from Homo sapiens)
- Centromere protein x (8 kDa, Protein from Homo sapiens)
- Centromere protein r (20 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
Structure of the human CCANdeltaT CENP-A alpha-satellite complex
Resolution: 8.9 Å
EM Method: Single-particle
Fitted PDBs: 7yyh
Q-score: 0.075
Yatskevich S, Muir KW, Bellini D, Zhang Z, Yang J, Tischer T, Predin M, Dendooven T, McLaughlin SH, Barford D
Science (2022) 376 pp. 844-852 [ DOI: doi:10.1126/science.abn3810 Pubmed: 35420891 ]
- Centromere protein n (39 kDa, Protein from Homo sapiens)
- Centromere protein q (30 kDa, Protein from Homo sapiens)
- Centromere protein c (61 kDa, Protein from Homo sapiens)
- Centromere protein u (47 kDa, Protein from Homo sapiens)
- Centromere protein l (39 kDa, Protein from Homo sapiens)
- Ccan-cenp-a inner centromere complex (Complex)
- Centromere protein k (31 kDa, Protein from Homo sapiens)
- Centromere protein i (86 kDa, Protein from Homo sapiens)
- Centromere protein p (33 kDa, Protein from Homo sapiens)
- Centromere protein h (28 kDa, Protein from Homo sapiens)
- Centromere protein o (33 kDa, Protein from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
- Histone h3-like centromeric protein a (16 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
- Centromere protein m (19 kDa, Protein from Homo sapiens)
- Centromere protein r (20 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
Structure of the human CCAN CENP-A alpha-satellite complex
Resolution: 2.44 Å
EM Method: Single-particle
Fitted PDBs: 7r5r
Q-score: 0.571
Yatskevich S, Muir KW, Bellini D, Zhang Z, Yang J, Tischer T, Predin M, Dendooven T, McLaughlin SH, Barford D
Science (2022) 376 pp. 844-852 [ DOI: doi:10.1126/science.abn3810 Pubmed: 35420891 ]
- Human ccan complex with bound alpha-satellite dna (Complex)
- Centromere protein c (61 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
- Histone h2a type 1-c (14 kDa, Protein from Homo sapiens)
- Histone h3-like centromeric protein a (16 kDa, Protein from Homo sapiens)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Dna (171-mer) (52 kDa, DNA from Homo sapiens)
Resolution: 6.9 Å
EM Method: Single-particle
Fitted PDBs: 6w5i
Q-score: 0.135
Lee YT, Ayoub A, Park SH, Sha L, Xu J, Mao F, Zheng W, Zhang Y, Cho US, Dou Y
Nat Commun (2021) 12 pp. 2953-2953 [ DOI: doi:10.1038/s41467-021-23268-9 Pubmed: 34012049 ]
- Histone h3.2, histone h4, histone h2a type 1, histone h2b 1.1 (Complex from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Wd repeat-containing protein 5 (34 kDa, Protein from Homo sapiens)
- Retinoblastoma-binding protein 5, wd repeat-containing protein 5, histone-lysine n-methyltransferase 2a, set1/ash2 histone methyltransferase complex subunit ash2 (Complex from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna (Complex from synthetic construct)
- Mll1 in complex with rbbp5, wdr5, set1, and ash2l bound to the nucleosome (380 kDa, Complex)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 6w5m
Q-score: 0.177
Lee YT, Ayoub A, Park SH, Sha L, Xu J, Mao F, Zheng W, Zhang Y, Cho US, Dou Y
Nat Commun (2021) 12 pp. 2953-2953 [ DOI: doi:10.1038/s41467-021-23268-9 Pubmed: 34012049 ]
- Histone h3.2, histone h4, histone h2a type 1, histone h2b 1.1 (Complex from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Wd repeat-containing protein 5 (34 kDa, Protein from Homo sapiens)
- Retinoblastoma-binding protein 5, wd repeat-containing protein 5, histone-lysine n-methyltransferase 2a, set1/ash2 histone methyltransferase complex subunit ash2 (Complex from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Dna (Complex from synthetic construct)
- Mll1 in complex with rbbp5, wdr5, set1, and ash2l bound to the nucleosome (380 kDa, Complex)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
Resolution: 6.0 Å
EM Method: Single-particle
Fitted PDBs: 6w5n
Q-score: 0.167
Lee YT, Ayoub A, Park SH, Sha L, Xu J, Mao F, Zheng W, Zhang Y, Cho US, Dou Y
Nat Commun (2021) 12 pp. 2953-2953 [ DOI: doi:10.1038/s41467-021-23268-9 Pubmed: 34012049 ]
- Histone h3.2, histone h4, histone h2a type 1, histone h2b 1.1 (Complex from Xenopus laevis)
- Retinoblastoma-binding protein 5 (59 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Dna (147-mer) (45 kDa, DNA from synthetic construct)
- Wd repeat-containing protein 5 (34 kDa, Protein from Homo sapiens)
- Retinoblastoma-binding protein 5, wd repeat-containing protein 5, histone-lysine n-methyltransferase 2a, set1/ash2 histone methyltransferase complex subunit ash2 (Complex from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Dna (Complex from synthetic construct)
- Mll1 in complex with rbbp5, wdr5, set1, and ash2l bound to the nucleosome (380 kDa, Complex)
- Histone-lysine n-methyltransferase 2a (24 kDa, Protein from Homo sapiens)
- Set1/ash2 histone methyltransferase complex subunit ash2 (60 kDa, Protein from Homo sapiens)
Structure of inner kinetochore CCAN-Cenp-A complex
Resolution: 4.15 Å
EM Method: Single-particle
Fitted PDBs: 6qld
Q-score: 0.328
Yan K, Yang J, Zhang Z, McLaughlin SH, Chang L, Fasci D, Ehrenhofer-Murray AE, Heck AJR, Barford D
Nature (2019) 574 pp. 278-282 [ DOI: doi:10.1038/s41586-019-1609-1 Pubmed: 31578520 ]
- Histone h3-like centromeric protein cse4 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore ccan complex assembled onto a centromeric nucleosome (Complex)
- Inner kinetochore subunit ctf3 (47 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit chl4 (51 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit ctf19 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h4 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (125-mer) (38 kDa, DNA from Escherichia coli)
- Inner kinetochore subunit mcm22 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (125-mer) (38 kDa, DNA from Escherichia coli)
- Histone h2a.1 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit iml3 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit okp1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2b.2 (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (Complex from Escherichia coli)
- Inner kinetochore subunit mif2 (2 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit nkp1 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Kinetochore (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) cerevisiae)
- Histone h2b.1 (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit mcm16 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2a.1 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histones (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit mcm21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h3-like centromeric protein cse4 (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit ame1 (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit nkp2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))