The crosslinked complex of ISWI-nucleosome in the ADP.BeF-bound state
Resolution: 3.37 Å
EM Method: Single-particle
Fitted PDBs: 6jyl
Q-score: 0.452
Yan L, Wu H, Li X, Gao N, Chen Z
Nat Struct Mol Biol (2019) 26 pp. 258-266 [ Pubmed: 30872815 DOI: doi:10.1038/s41594-019-0199-9 ]
- Iswi (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (Complex from Escherichia coli K-12)
- Iswi-nucleosome-crosslinked (300 kDa, Complex)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Beryllium trifluoride ion (66 Da, Ligand)
- Nucleosome (Complex from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Dna (167-mer) (51 kDa, Protein from Escherichia coli K-12)
Structure of Snf2-nucleosome complex in ADP state
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 5z3o
Q-score: 0.349
Li M, Xia X, Tian Y, Jia Q, Liu X, Lu Y, Li M, Li X, Chen Z
Nature (2019) 567 pp. 409-413 [ DOI: doi:10.1038/s41586-019-1029-2 Pubmed: 30867599 ]
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Complex of snf2 and nucleosome in adp state (300 kDa, Complex from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Transcription regulatory protein snf2 (85 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (167-mer) (51 kDa, DNA from synthetic construct)
The complex of ISWI-nucleosome in the ADP.BeF-bound state
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 6k1p
Q-score: 0.42
Yan L, Wu H, Li X, Gao N, Chen Z
Nat Struct Mol Biol (2019) 26 pp. 258-266 [ DOI: doi:10.1038/s41594-019-0199-9 Pubmed: 30872815 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Isw1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Nuleosome (Complex from Xenopus laevis)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (Complex from Escherichia coli K-12)
- Beryllium trifluoride ion (66 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- The complex of iswi-nucleosome in the adp-bef-bound state (300 kDa, Complex)
the crosslinked complex of ISWI-nucleosome in the ADP-bound state
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6iro
Q-score: 0.435
Yan L, Wu H, Li X, Gao N, Chen Z
Nat Struct Mol Biol (2019) 26 pp. 258-266 [ Pubmed: 30872815 DOI: doi:10.1038/s41594-019-0199-9 ]
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Dna (Complex from Escherichia coli K-12)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- The crosslinked complex of iswi-nucleosome in the adp-bound state (Complex)
- Histone octamer (Complex from Xenopus laevis)
- Isw1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Adenosine-5'-diphosphate (427 Da, Ligand)
Structure of Snf2-MMTV-A nucleosome complex at shl2 in ADP state
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 6iy2
Q-score: 0.427
Li M, Xia X, Tian Y, Jia Q, Liu X, Lu Y, Li M, Li X, Chen Z
Nature (2019) 567 pp. 409-413 [ DOI: doi:10.1038/s41586-019-1029-2 Pubmed: 30867599 ]
- Structure of snf2-mmtv-a nucleosome complex at shl2 in adp state (300 kDa, Complex from Xenopus laevis)
- Transcription regulatory protein snf2 (79 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone h2a (12 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (44 kDa, DNA from Mus musculus)
- Histone h2b (11 kDa, Protein from Xenopus laevis)
- Histone h4 (10 kDa, Protein from Xenopus laevis)
- Histone h3 (11 kDa, Protein from Xenopus laevis)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Dna (147-mer) (45 kDa, DNA from Mus musculus)
Adeno-Associated Virus 2 in complex with AAVR
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6ihb
Q-score: 0.437
Zhang R, Cao L, Cui M, Sun Z, Hu M, Zhang R, Stuart W, Zhao X, Yang Z, Li X, Sun Y, Li S, Ding W, Lou Z, Rao Z
Nat Microbiol (2019) 4 pp. 675-682 [ DOI: doi:10.1038/s41564-018-0356-7 Pubmed: 30742069 ]
- Aav2 in complex with aavr (Complex)
- Adeno-associated virus 2 (Complex from Adeno-associated virus 2 (isolate Srivastava/1982))
- Capsid protein vp1 (82 kDa, Protein from Adeno-associated virus 2 (isolate Srivastava/1982))
- Dyslexia-associated protein kiaa0319-like protein (10 kDa, Protein from Homo sapiens)
- Aavr pkd2 (Complex 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)
Type VI secretion system membrane core complex
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6ixh
Q-score: 0.442
Cell Res (2019) 29 pp. 251-253 [ Pubmed: 30647412 DOI: doi:10.1038/s41422-018-0130-7 ]
Structure of 2:1 human Ptch1-Shh-N complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6e1h
Q-score: 0.394
Qi X, Schmiege P, Coutavas E, Li X
Science (2018) 362 [ Pubmed: 30139912 DOI: doi:10.1126/science.aas8843 ]
- Sonic hedgehog protein (19 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Protein patched homolog 1 (160 kDa, Protein from Homo sapiens)
- Ptc (265 kDa, Complex from Homo sapiens)
- Palmitic acid (256 Da, Ligand)
- Zinc ion (65 Da, Ligand)