Human NEXT dimer in complex with the nuclear RNA exosome
Gerlach P, Garland W, Lingaraju M, Salerno-Kochan A, Bonneau F, Basquin J, Jensen TH, Conti E
Mol Cell (2022) 82 pp. 2505-2518.e7 [ Pubmed: 35688157 DOI: doi:10.1016/j.molcel.2022.04.011 ]
- Zinc finger cchc domain-containing protein 8 (Protein from Homo sapiens)
- Nuclear nucleic acid-binding protein c1d (Protein from Homo sapiens)
- Rna 5 prime hairpin u60 (RNA from synthetic construct)
- Exosome complex component rrp46 (Protein from Homo sapiens)
- Human next dimer in complex with the nuclear rna exosome (Complex from Homo sapiens)
- Human next dimer in complex with the nuclear rna exosome (Complex)
- Exosome rna helicase mtr4 (Protein from Homo sapiens)
- M-phase phosphoprotein 6 (Protein from Homo sapiens)
- Exosome complex component mtr3 (Protein from Homo sapiens)
- Rna 5 prime hairpin u60 (Complex from synthetic construct)
- Exosome complex component rrp42 (Protein from Homo sapiens)
- Exosome complex component rrp45 (Protein from Homo sapiens)
- Exosome complex component rrp40 (Protein from Homo sapiens)
- Exosome complex component csl4 (Protein from Homo sapiens)
- Exosome component 10 (Protein from Homo sapiens)
- Rna-binding protein 7 (Protein from Homo sapiens)
- Exosome complex component rrp41 (Protein from Homo sapiens)
- Exosome complex exonuclease rrp44 (Protein from Homo sapiens)
- Exosome complex component rrp4 (Protein from Homo sapiens)
Human nuclear RNA exosome EXO-10-MPP6 complex
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6h25
Q-score: 0.427
Gerlach P, Schuller JM, Bonneau F, Basquin J, Reichelt P, Falk S, Conti E
eLife (2018) 7 [ DOI: doi:10.7554/eLife.38686 Pubmed: 30047866 ]
- Exosome complex component rrp42 (32 kDa, Protein from Homo sapiens)
- U44 ssrna (Complex from synthetic construct)
- Exosome complex component rrp43 (30 kDa, Protein from Homo sapiens)
- Exosome complex component rrp41 (26 kDa, Protein from Homo sapiens)
- Human nuclear rna exosome exo-14 complex (Complex)
- Exosome complex (Complex from Homo sapiens)
- Exosome complex component rrp45 (49 kDa, Protein from Homo sapiens)
- Exosome complex component rrp40 (30 kDa, Protein from Homo sapiens)
- Exosome complex component csl4 (21 kDa, Protein from Homo sapiens)
- Exosome complex component mtr3 (28 kDa, Protein from Homo sapiens)
- M-phase phosphoprotein 6 (19 kDa, Protein from Homo sapiens)
- Exosome complex component rrp46 (25 kDa, Protein from Homo sapiens)
- Exosome complex component rrp4 (33 kDa, Protein from Homo sapiens)
- Exosome complex exonuclease rrp44 (109 kDa, Protein from Homo sapiens)
- U44 ssrna (13 kDa, RNA from synthetic construct)
Human nuclear exosome-MTR4 RNA complex - overall reconstruction
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 6d6q
Q-score: 0.413
Weick EM, Puno MR, Januszyk K, Zinder JC, DiMattia MA, Lima CD
Cell (2018) 173 pp. 1663- [ DOI: doi:10.1016/j.cell.2018.05.041 Pubmed: 29906447 ]
- Exosome complex component mtr3 (28 kDa, Protein from Homo sapiens)
- Exosome complex component csl4 (21 kDa, Protein from Homo sapiens)
- M-phase phosphoprotein 6 (19 kDa, Protein from Homo sapiens)
- Exosome complex component rrp41 (26 kDa, Protein from Homo sapiens)
- Exosome complex component rrp46 (25 kDa, Protein from Homo sapiens)
- Exosome rna helicase mtr4 (118 kDa, Protein from Homo sapiens)
- Exosome complex component rrp4 (33 kDa, Protein from Homo sapiens)
- Human nuclear exosome-mtr4 helicase captured after unwinding a dna/rna substrate (690 kDa, Complex from Homo sapiens)
- Dna/rna (62-mer) (19 kDa, Macromolecule from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Exosome complex component rrp45 (52 kDa, Protein from Homo sapiens)
- Exosome complex component rrp42 (32 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Exosome component 10 (86 kDa, Protein from Homo sapiens)
- Exosome complex component rrp40 (29 kDa, Protein from Homo sapiens)
- Exosome complex component rrp43 (30 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Exosome complex exonuclease rrp44 (109 kDa, Protein from Homo sapiens)
- Rna (5'-r(*ap*gp*cp*ap*cp*cp*gp*up*ap*ap*ap*gp*ap*cp*gp*c)-3') (5 kDa, RNA from synthetic construct)
Human nuclear exosome-MTR4 RNA complex - composite map after focused reconstruction
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 6d6r
Q-score: 0.456
Weick EM, Puno MR, Januszyk K, Zinder JC, DiMattia MA, Lima CD
Cell (2018) 173 pp. 1663- [ Pubmed: 29906447 DOI: doi:10.1016/j.cell.2018.05.041 ]
- Exosome complex component mtr3 (28 kDa, Protein from Homo sapiens)
- Exosome component 10 (86 kDa, Protein from Homo sapiens)
- Exosome complex component rrp40 (29 kDa, Protein from Homo sapiens)
- Human nuclear exosome-mtr4 helicase captured after unwinding a dna/rna substrate (690 kDa, Complex from Homo sapiens)
- Dna/rna (62-mer) (19 kDa, Macromolecule from synthetic construct)
- Exosome complex component rrp4 (33 kDa, Protein from Homo sapiens)
- Exosome rna helicase mtr4 (118 kDa, Protein from Homo sapiens)
- Rna (5'-r(*ap*gp*cp*ap*cp*cp*gp*up*ap*ap*ap*gp*ap*cp*gp*c)-3') (5 kDa, RNA from synthetic construct)
- Exosome complex component rrp43 (30 kDa, Protein from Homo sapiens)
- Exosome complex component rrp45 (52 kDa, Protein from Homo sapiens)
- Exosome complex component csl4 (21 kDa, Protein from Homo sapiens)
- Exosome complex component rrp41 (26 kDa, Protein from Homo sapiens)
- Exosome complex component rrp42 (32 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Exosome complex exonuclease rrp44 (109 kDa, Protein from Homo sapiens)
- M-phase phosphoprotein 6 (19 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Exosome complex component rrp46 (25 kDa, Protein from Homo sapiens)
Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ Pubmed: 24336220 DOI: doi:10.1038/nsmb.2736 ]
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna08 (350 kDa, Sample)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rna08 (2 kDa, RNA from synthetic construct)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ Pubmed: 24336220 DOI: doi:10.1038/nsmb.2736 ]
- Rna10 (2 kDa, RNA from synthetic construct)
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna10 (350 kDa, Sample)
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ Pubmed: 24336220 DOI: doi:10.1038/nsmb.2736 ]
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna12 (350 kDa, Sample)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rna12 (3 kDa, RNA from synthetic construct)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ DOI: doi:10.1038/nsmb.2736 Pubmed: 24336220 ]
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rna14 (3 kDa, RNA from synthetic construct)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna14 (350 kDa, Sample)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ DOI: doi:10.1038/nsmb.2736 Pubmed: 24336220 ]
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rna16 (4 kDa, RNA from synthetic construct)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna16 (350 kDa, Sample)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)
Substrate Recruitment Pathways in the Yeast Exosome by Electron Microscopy
Liu JJ, Bratkowski MA, Liu X, Niu CY, Ke A, Wang HW
Nat Struct Mol Biol (2014) 21 pp. 95-102 [ DOI: doi:10.1038/nsmb.2736 Pubmed: 24336220 ]
- Mtr3 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp43 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rrp46-tap (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44 (110 kDa, Protein from Saccharomyces cerevisiae)
- Rrp44-exosome incubated with rna24 (350 kDa, Sample)
- Csl4 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp40 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp45 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp42 (30 kDa, Protein from Saccharomyces cerevisiae)
- Rrp4 (40 kDa, Protein from Saccharomyces cerevisiae)
- Rna24 (7 kDa, RNA from synthetic construct)
- Rrp41 (30 kDa, Protein from Saccharomyces cerevisiae)