CryoEM structure of canonical rice nucleosome core particle
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8q15
Q-score: 0.401
Hari Sundar G V, Sotelo-Parrilla P, Raju S, Jha S, Gireesh A, Gut F, Vinothkumar KR, Berger F, Jeyaprakash AA, Shivaprasad PV
To Be Published
- Histone h2b.4 (16 kDa, Protein from Oryza)
- Histone h2a.2 (13 kDa, Protein from Oryza)
- Rice canonical nucleosome core particle with widom 601 dna sequence (Complex from Oryza)
- Histone h4 (11 kDa, Protein from Oryza)
- Widom 601 (44 kDa, DNA from synthetic construct)
- Widom 601 (45 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Oryza)
CryoEM structure of rice nucleosome containing a H4 variant chimera
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8q16
Q-score: 0.441
Hari Sundar G V, Sotelo-Parrilla P, Raju S, Jha S, Gireesh A, Gut F, Vinothkumar KR, Berger F, Jeyaprakash AA, Shivaprasad PV
To Be Published
- Histone h3.2 (15 kDa, Protein from Oryza)
- Widom 601 (45 kDa, DNA from synthetic construct)
- Chimeric h4.v (11 kDa, Protein from Oryza)
- Histone h2a.2 (13 kDa, Protein from Oryza)
- Widom 601 (45 kDa, DNA from synthetic construct)
- Rice nucleosome core particle containing a histone h4 variant chimera with widom 601 dna (Complex from Oryza)
- Histone h2b.4 (16 kDa, Protein from Oryza)
Chromosome Passenger Complex (CPC) localization module in complex with H3.T3p-nucleosome
Resolution: 2.42 Å
EM Method: Single-particle
Fitted PDBs: 8rup
Q-score: 0.551
Ruza RR, Chung CW, Gold DB, Serena M, Roberts E, Gruneberg U, Barr FA
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.22.634029 ]
- Dna (Complex from synthetic construct)
- Inner centromere protein (9 kDa, Protein from Homo sapiens)
- Baculoviral iap repeat-containing protein 5 (16 kDa, Protein from Homo sapiens)
- Chromosome passenger complex localisation module (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Borealin (9 kDa, Protein from Homo sapiens)
- Human cpc localisation module in complex with xenopus h3.t3p-nucleosome (202 kDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (47 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- H3.t3p-nucleosome (Complex from Xenopus laevis)
- Dna (147-mer) (46 kDa, DNA from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Borealin N-terminus in complex with H3.T3p-nucleosome
Resolution: 2.29 Å
EM Method: Single-particle
Fitted PDBs: 8ruq
Q-score: 0.618
Ruza RR, Chung CW, Gold DB, Serena M, Roberts E, Gruneberg U, Barr FA
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.22.634029 ]
- Chromosome passenger complex localisation module (borealin n-terminus only) (Complex from Homo sapiens)
- Dna (147-mer) (47 kDa, DNA from unidentified)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Borealin (9 kDa, Protein from Homo sapiens)
- Human cpc localisation module in complex with xenopus h3.t3p-nucleosome (202 kDa, Complex from Homo sapiens)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- H3.t3p-nucleosome (Complex from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna (147-mer) (46 kDa, DNA from unidentified)
Haspin bound to nucleosome in position 1
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 9b2s
Q-score: 0.536
Hicks CW, Gliech CR, Zhang X, Rahman S, Vasquez S, Holland AJ, Wolberger C
To Be Published
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Haspin bound to nucleosome (Complex from Xenopus laevis)
- Serine/threonine-protein kinase haspin (40 kDa, Protein from Homo sapiens)
- 601 dna (185-mer) (57 kDa, DNA from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- 601 dna (185-mer) (56 kDa, DNA from synthetic construct)
Haspin bound to nucleosome in position 2
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 9b2t
Q-score: 0.502
Hicks CW, Gliech CR, Zhang X, Rahman S, Vasquez S, Holland AJ, Wolberger C
To Be Published
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Serine/threonine-protein kinase haspin (40 kDa, Protein from Homo sapiens)
- Haspin bound to nucleosome (Complex from Xenopus laevis)
- 601 dna (185-mer) (57 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- 601 dna (185-mer) (56 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
Cryo-EM structure of nucleosome containing Widom603 DNA
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8rgm
Q-score: 0.352
Motorin NA, Afonin D, Armeev GA, Moiseenko A, Zhao L, Vasiliev V, Oleinikov P, Shaytan A, Shi X, Studitsky V, Sokolova O
To Be Published
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Human nucleosome containing widom 603 dna sequence (Complex from Homo sapiens)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Widom 603 dna sequence (44 kDa, DNA from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Widom 603 dna sequence (44 kDa, DNA from synthetic construct)
hCDCA7 bound to nucleosome with hemimethylated CpG in 3'-linker DNA
Arita K, Nishiyama A, Funabiki H
To Be Published
- Histone h2b (Complex from Homo sapiens)
- Hcdca7 bound to nucleosome (Complex from Homo sapiens)
- Cdca7 (Complex from Homo sapiens)
- Dna (157-mer) (Complex from synthetic construct)
- Histone h4 (Complex from Homo sapiens)
- Histone h3.1 (Complex from Homo sapiens)
- Histone h2a (Complex from Homo sapiens)
Cryo-EM structure of Nap1 core
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9b23
Q-score: 0.311
Fung HYJ, Jiou J, Niesman AB, Bernardes NE, Chook YM
J Cell Biol (2025) 224 [ DOI: doi:10.1083/jcb.202408193 Pubmed: 39601790 ]
- Nap1 isoform 1 (36 kDa, Protein from Saccharomyces cerevisiae)
- Complex of kap114 bound to nap1 and histone h2a-h2b (72 kDa, Complex from Saccharomyces cerevisiae)
Cryo-EM structure of yeast (Nap1)2-Kap114-H2A-H2B
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9b31
Q-score: 0.324
Fung HYJ, Jiou J, Niesman AB, Bernardes NE, Chook YM
J Cell Biol (2025) 224 [ DOI: doi:10.1083/jcb.202408193 Pubmed: 39601790 ]
- Kap114 isoform 1 (114 kDa, Protein from Saccharomyces cerevisiae)
- Crosslinked mixture of kap114 with nap1 and h2a-h2b (72 kDa, Complex from Saccharomyces cerevisiae)
- Histone h2b (14 kDa, Protein from Saccharomyces cerevisiae)
- Histone h2a (13 kDa, Protein from Saccharomyces cerevisiae)
- Nap1 isoform 1 (36 kDa, Protein from Saccharomyces cerevisiae)