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 [ DOI: doi:10.1038/s41594-019-0199-9 Pubmed: 30872815 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, Protein from Escherichia coli K-12)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Iswi (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Iswi-nucleosome-crosslinked (300 kDa, Complex)
- Nucleosome (Complex from Xenopus laevis)
- Dna (Complex from Escherichia coli K-12)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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 ]
- Isw1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- The complex of iswi-nucleosome in the adp-bef-bound state (300 kDa, Complex)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nuleosome (Complex from Xenopus laevis)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Dna (Complex from Escherichia coli K-12)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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 [ DOI: doi:10.1038/s41594-019-0199-9 Pubmed: 30872815 ]
- Isw1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Iswi chromatin-remodeling complex atpase isw1 (123 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone octamer (Complex from Xenopus laevis)
- The crosslinked complex of iswi-nucleosome in the adp-bound state (Complex)
- Dna (Complex from Escherichia coli K-12)
- Dna (167-mer) (51 kDa, DNA from Escherichia coli K-12)
Large subunit of Mycobacterium smegmatis
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 5xym
Q-score: 0.518
Li Z, Ge X, Zhang Y, Zheng L, Sanyal S, Gao N
Protein Cell (2018) 9 pp. 384-388 [ DOI: doi:10.1007/s13238-017-0456-9 Pubmed: 28875450 ]
- 50s ribosomal protein l28 (6 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l13 (16 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l33 2 (6 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l5 (21 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l32 (6 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l15 (15 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l29 (8 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l24 (11 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l35 (7 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l18 (13 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Large subunit of mycobacterium smegmatis ribosome (Complex from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l19 (12 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l9 (15 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l6 (19 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 23s rna (1 MDa, RNA from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l20 (14 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l27 (9 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l30 (7 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l17 (21 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Uncharacterized protein bl37 (2 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l22 (16 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l4 (22 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l21 (11 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l34 (5 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l16 (15 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l25 (22 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l36 (4 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 5s rna (38 kDa, RNA from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l2 (30 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l23 (11 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 50s ribosomal protein l14 (13 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
Small subunit of Mycobacterium smegmatis ribosome
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 5xyu
Q-score: 0.482
Li Z, Ge X, Zhang Y, Zheng L, Sanyal S, Gao N
Protein Cell (2018) 9 pp. 384-388 [ DOI: doi:10.1007/s13238-017-0456-9 Pubmed: 28875450 ]
- 30s ribosomal protein s18 2 (9 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s5 (21 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s4 (23 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s6 (10 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Small subunit of mycobacterium smegmatis ribosome (Complex from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s11 (14 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s10 (11 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s15 (10 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s16 (16 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s12 (13 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s13 (14 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s9 (16 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s20 (9 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Conserved domain protein (4 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 16s rna (495 kDa, RNA from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s3 (30 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s19 (10 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s14 type z (6 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s17 (11 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s8 (14 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
- 30s ribosomal protein s7 (17 kDa, Protein from Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155))
Small subunit of Toxoplasma gondii ribosome
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 5xxu
Q-score: 0.444
Li Z, Guo Q, Zheng L, Ji Y, Xie YT, Lai DH, Lun ZR, Suo X, Gao N
Cell Res (2017) 27 pp. 1275-1288 [ DOI: doi:10.1038/cr.2017.104 Pubmed: 28809395 ]
- Ribosomal protein us19 (17 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us17 (18 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es19 (18 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us8 (14 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es25 (18 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us13 (17 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es8 (23 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us15 (17 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us10 (25 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es26 (12 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us9 (16 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es1 (29 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es7 (22 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us5 (29 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us12 (15 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es12 (15 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es17 (15 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein el41 (5 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us3 (26 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es6 (29 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es31 (17 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es4 (30 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es24 (15 kDa, Protein from Toxoplasma gondii)
- 18s rna (576 kDa, RNA from Toxoplasma gondii)
- Ribosomal protein es27 (9 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us4 (21 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us11 (16 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us7 (21 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us14 (6 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es21 (9 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es30 (6 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein us2 (31 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein es28 (7 kDa, Protein from Toxoplasma gondii)
- Small subunit of toxoplasma gondii ribosome (Complex from Toxoplasma gondii)
- Ribosomal protein es10 (17 kDa, Protein from Toxoplasma gondii)
Small subunit of Trichomonas vaginalis ribosome
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 5xyi
Q-score: 0.448
Li Z, Guo Q, Zheng L, Ji Y, Xie YT, Lai DH, Lun ZR, Suo X, Gao N
Cell Res (2017) 27 pp. 1275-1288 [ DOI: doi:10.1038/cr.2017.104 Pubmed: 28809395 ]
- 40s ribosomal protein s17-b, putative (14 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s27 (9 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s6 (24 kDa, Protein from Trichomonas vaginalis)
- Uncharacterized protein (21 kDa, Protein from Trichomonas vaginalis)
- 18s (508 kDa, RNA from Trichomonas vaginalis)
- Uncharacterized protein (30 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s3, putative (24 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s19, putative (16 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s7, putative (18 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s23, putative (15 kDa, Protein from Trichomonas vaginalis)
- Uncharacterized protein (18 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein sa (28 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s30 (6 kDa, Protein from Trichomonas vaginalis)
- Plectin/s10 domain containing protein (16 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein l7ae, putative (13 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s13, putative (17 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s24e, putative (16 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s14 (16 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s19e, putative (16 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s4 (28 kDa, Protein from Trichomonas vaginalis)
- Guanine nucleotide-binding protein beta subunit, putative (37 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s13p/s18e, putative (17 kDa, Protein from Trichomonas vaginalis)
- El41 (3 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s5-b, putative (21 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s15a (14 kDa, Protein from Trichomonas vaginalis)
- Uncharacterized protein (12 kDa, Protein from Trichomonas vaginalis)
- Small subunit of trichomonas vaginalis ribosome (Complex from Trichomonas vaginalis)
- 40s ribosomal protein s21 (9 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s26 (13 kDa, Protein from Trichomonas vaginalis)
- Uncharacterized protein (7 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s3ae, putative (28 kDa, Protein from Trichomonas vaginalis)
- Ribosomal protein s10p/s20e, putative (13 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s8 (22 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s16, putative (15 kDa, Protein from Trichomonas vaginalis)
- 40s ribosomal protein s29, putative (6 kDa, Protein from Trichomonas vaginalis)