Structural basis for the linker histone H5-nucleosome binding and chromatin compaction
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8xjv
Q-score: 0.424
Li W, Hu J, Song F, Yu J, Peng X, Zhang S, Wang L, Hu M, Liu JC, Wei Y, Xiao X, Li Y, Li D, Wang H, Zhou BR, Dai L, Mou Z, Zhou M, Zhang H, Zhou Z, Zhang H, Bai Y, Zhou JQ, Li W, Li G, Zhu P
Cell Res (2024) 34 pp. 707-724 [ DOI: doi:10.1038/s41422-024-01009-z Pubmed: 39103524 ]
- Dna (651 kDa, DNA from synthetic construct)
- Histone h2a (14 kDa, Protein from Xenopus laevis)
- Histone h3.1 (Complex from Xenopus laevis)
- Histone h4 (Complex from Xenopus laevis)
- Histone h2a (Complex from Xenopus laevis)
- Histone h2b (Complex from Xenopus laevis)
- 12x177bp-h5 chromatin (Complex)
- Histone h5 (21 kDa, Protein from Gallus gallus)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Linker histone h5 (Complex from Gallus gallus)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (660 kDa, DNA from synthetic construct)
- Widom 601 dna (Complex from synthetic construct)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Anthrax Toxin Receptor 1-bound spent particles of Seneca Valley Virus in acidic conditions
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 6adl
Q-score: -0.025
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
PNAS (2018) 115 pp. 13087-13092 [ DOI: doi:10.1073/pnas.1814309115 Pubmed: 30514821 ]
- Vp1 (25 kDa, Protein from Senecavirus A)
- Vp2 (27 kDa, Protein from Senecavirus A)
- Seneca valley virus (Virus from Seneca valley virus)
- Magnesium ion (24 Da, Ligand)
- Vp3 (26 kDa, Protein from Senecavirus A)
- Anthrax toxin receptor 1 (21 kDa, Protein from Homo sapiens)
Anthrax Toxin Receptor 1-bound full particles of Seneca Valley Virus in acidic conditions
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6adm
Q-score: -0.027
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
PNAS (2018) 115 pp. 13087-13092 [ DOI: doi:10.1073/pnas.1814309115 Pubmed: 30514821 ]
- Vp2 (29 kDa, Protein from Seneca valley virus)
- Vp1 (28 kDa, Protein from Seneca valley virus)
- Seneca valley virus (Virus from Seneca valley virus)
- Vp4 (5 kDa, Protein from Seneca valley virus)
- Magnesium ion (24 Da, Ligand)
- Vp3 (26 kDa, Protein from Seneca valley virus)
- Anthrax toxin receptor 1 (21 kDa, Protein from Homo sapiens)
Anthrax Toxin Receptor 1-bound the Seneca Valley Virus in neutral conditions
Resolution: 3.38 Å
EM Method: Single-particle
Fitted PDBs: 6adr
Q-score: -0.016
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
PNAS (2018) 115 pp. 13087-13092 [ DOI: doi:10.1073/pnas.1814309115 Pubmed: 30514821 ]
- Water (18 Da, Ligand)
- Vp1 (28 kDa, Protein from Seneca valley virus)
- Vp2 (29 kDa, Protein from Seneca valley virus)
- Vp4 (7 kDa, Protein from Seneca valley virus)
- Vp3 (26 kDa, Protein from Seneca valley virus)
- Seneca valley virus (Virus from Seneca valley virus)
- Magnesium ion (24 Da, Ligand)
- Anthrax toxin receptor 1 (21 kDa, Protein from Homo sapiens)
Structure of Seneca Valley Virus in acidic conditions
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6ads
Q-score: -0.019
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
PNAS (2018) 115 pp. 13087-13092 [ DOI: doi:10.1073/pnas.1814309115 Pubmed: 30514821 ]
- Vp1 (28 kDa, Protein from Seneca valley virus)
- Vp2 (29 kDa, Protein from Seneca valley virus)
- Vp4 (7 kDa, Protein from Seneca valley virus)
- Seneca valley virus (Virus from Seneca valley virus)
- Vp3 (25 kDa, Protein from Seneca valley virus)
Structure of Seneca Valley Virus in neutral condition
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 6adt
Q-score: -0.03
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
PNAS (2018) 115 pp. 13087-13092 [ DOI: doi:10.1073/pnas.1814309115 Pubmed: 30514821 ]
- Vp1 (28 kDa, Protein from Seneca valley virus)
- Vp2 (29 kDa, Protein from Seneca valley virus)
- Vp4 (7 kDa, Protein from Seneca valley virus)
- Vp3 (26 kDa, Protein from Seneca valley virus)
- Seneca valley virus (Virus from Seneca valley virus)
BG505 SOSIP.664 in complex with broadly neutralizing antibodies PG9 and 8ANC195
Resolution: 11.5 Å
EM Method: Single-particle
Fitted PDBs: 5vj6
Q-score: 0.097
Wang H, Gristick HB, Scharf L, West AP, Galimidi RP, Seaman MS, Freund NT, Nussenzweig MC, Bjorkman PJ
eLife (2017) 6 [ Pubmed: 28548638 DOI: doi:10.7554/eLife.27389 ]
- Pg9 fab heavy chain (27 kDa, Protein from Homo sapiens)
- 8anc195 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Bg505 sosip-pg9-8anc195 complex (Complex from Homo sapiens)
- Envelope glycoprotein gp160 (17 kDa, Protein from Human immunodeficiency virus 1)
- 8anc195 fab light chain (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (54 kDa, Protein from Human immunodeficiency virus 1)
- Pg9 fab light chain (22 kDa, Protein from Homo sapiens)