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Cryo-EM structure of the chain-elongating E3 ubiquitin ligase UBR5
Hodáková Z, Grishkovskaya I, Brunner HL, Bolhuis DL, Belačić K, Schleiffer A, Kotisch H, Brown NG, Haselbach D
bioRxiv (2022) [ DOI: 10.1101/2022.11.03.515015 ]
Image sets:
- Motion-corrected and dose-weighted micrographs of UBR5-fOM dataset with no tilt
- Motion-corrected and dose-weighted micrographs of UBR5-CHAPSO dataset
- Motion-corrected and dose-weighted micrographs of UBR5-fOM dataset with 30degree tilt
- Motion-corrected and dose-weighted micrographs of UBR5-fOM dataset
- Motion-corrected and dose-weighted micrographs of UBR5-fOM dataset 3
A molecular network of conserved factors keeps ribosomes dormant in the egg
Leesch F, Lorenzo-Orts L, Pribitzer C, Grishkovskaya I, Roehsner J, Chugunova A, Matzinger M, Roitinger E, Belačić K, Kandolf S, Lin TY, Mechtler K, Meinhart A, Haselbach D, Pauli A
Nature (2023) 613 pp. 712-720 [ Pubmed: 36653451 DOI: 10.1038/s41586-022-05623-y ]
Image sets:
- Unaligned Multiframe Micrographs of the Zebrafish egg ribosome 1 hour past fertilization.
- Unaligned Multiframe Micrographs of the Xenopus egg ribosome.
- Unaligned Multiframe Micrographs of the Rabbit reticulocyte ribosome in complex with recombinant Dap1b
- Unaligned Multiframe Micrographs of the Zebrafish egg ribosome 6 hours past fertilization.
Single-particle cryo-EM of APC/C-CDH1-UBE2C-UBE2S-Ubiquitin-CyclinB-NTD
Bodrug T, Welsh KA, Bolhuis DL, Paulаkonis E, Martinez-Chacin RC, Liu B, Pinkin N, Bonacci T, Cui L, Xu P, Roscow O, Amann SJ, Grishkovskaya I, Emanuele MJ, Harrison JS, Steimel JP, Hahn KM, Zhang W, Zhong ED, Haselbach D, Brown NG
Nat Struct Mol Biol (2023) [ DOI: 10.1038/s41594-023-01105-5 Pubmed: 37735619 ]
Image sets:
Single-particle cryo-EM of APC/C-CDH1-UBE2C-Ubiquitin-CyclinB-NTD
Bodrug T, Welsh KA, Bolhuis DL, Paulаkonis E, Martinez-Chacin RC, Liu B, Pinkin N, Bonacci T, Cui L, Xu P, Roscow O, Amann SJ, Grishkovskaya I, Emanuele MJ, Harrison JS, Steimel JP, Hahn KM, Zhang W, Zhong ED, Haselbach D, Brown NG
Nat Struct Mol Biol (2023) [ DOI: 10.1038/s41594-023-01105-5 Pubmed: 37735619 ]
Image sets:
APC/C-CDH1-UBE2C-Ubiquitin-CyclinB-NTD
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8tar
Q-score: 0.348
Bodrug T, Welsh KA, Bolhuis DL, Martinez-Chacin RC, Liu B, Pinkin N, Bonacci T, Cui L, Xu P, Roscow O, Amann SJ, Grishkovskaya I, Emanuele MJ, Harrison JS, Steimel JP, Hahn KM, Zhang W, Zhong ED, Haselbach D, Brown NG
Nat Struct Mol Biol (2023) 30 pp. 1663-1674 [ DOI: doi:10.1038/s41594-023-01105-5 Pubmed: 37735619 ]
- Anaphase-promoting complex subunit 2 (94 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 11 (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- G2/mitotic-specific cyclin-b1 (1 kDa, Protein from Homo sapiens)
- Cell division cycle protein 16 homolog (71 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 5 (85 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 16 (6 kDa, Protein from Homo sapiens)
- Cell division cycle protein 23 homolog (69 kDa, Protein from Homo sapiens)
- Fizzy-related protein homolog (55 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 1 (217 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 4 (92 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit cdc26 (9 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 c (16 kDa, Protein from Homo sapiens)
- Cell division cycle protein 27 homolog (92 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 10 (21 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex/cyclosome in complex with chd1, ube2c, and cyclin-b (Complex from Homo sapiens)
- Anaphase-promoting complex subunit 15 (6 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 13 (8 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 7 (63 kDa, Protein from Homo sapiens)
APC/C-CDH1-UBE2C-UBE2S-Ubiquitin-CyclinB
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8tau
Q-score: 0.319
Bodrug T, Welsh KA, Bolhuis DL, Paulakonis E, Martinez-Chacin RC, Liu B, Pinkin N, Bonacci T, Cui L, Xu P, Roscow O, Amann SJ, Grishkovskaya I, Emanuele MJ, Harrison JS, Steimel JP, Hahn KM, Zhang W, Zhong ED, Haselbach D, Brown NG
Nat Struct Mol Biol (2023) 30 pp. 1663-1674 [ DOI: doi:10.1038/s41594-023-01105-5 Pubmed: 37735619 ]
- Anaphase-promoting complex subunit 2 (94 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 16 (11 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 11 (9 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 c (19 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- G2/mitotic-specific cyclin-b1 (1 kDa, Protein from Homo sapiens)
- Cell division cycle protein 16 homolog (71 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 5 (85 kDa, Protein from Homo sapiens)
- Cell division cycle protein 23 homolog (69 kDa, Protein from Homo sapiens)
- Fizzy-related protein homolog (55 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 1 (217 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 4 (92 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex/cyclosome in complex with cdh1, ube2c, ube2s, cyclin-b (1 MDa, Complex)
- Ubiquitin-conjugating enzyme e2 s (2 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit cdc26 (9 kDa, Protein from Homo sapiens)
- Cell division cycle protein 27 homolog (92 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 10 (21 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 15 (6 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 13 (8 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 7 (63 kDa, Protein from Homo sapiens)
Structure of the human UBR5 Dimer.
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8bja
Q-score: 0.363
Hodakova Z, Grishkovskaya I, Brunner HL, Bolhuis DL, Belacic K, Schleiffer A, Kotisch H, Brown NG, Haselbach D
EMBO J (2023) 42 pp. e113348-e113348 [ Pubmed: 37409633 DOI: doi:10.15252/embj.2022113348 ]
- Ubr5 (310 MDa, Cellular component from Homo sapiens)
- E3 ubiquitin-protein ligase ubr5 (312 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Cryo-EM map of the Xenopus egg dormant ribosome
Leesch F, Lorenzo-Orts L, Pribitzer C, Grishkovskaya I, Roehsner J, Chugunova A, Matzinger M, Roitinger E, Belacic K, Kandolf S, Lin TY, Mechtler K, Meinhart A, Haselbach D, Pauli A
Nature (2023) 613 pp. 712-720 [ Pubmed: 36653451 DOI: doi:10.1038/s41586-022-05623-y ]
Structure of pre-60S particle bound to DRG1(AFG2)
Prattes M, Grishkovskaya I, Hodirnau VV, Hetzmannseder C, Zisser G, Sailer C, Kargas V, Loibl M, Gerhalter M, Kofler L, Warren AJ, Stengel F, Haselbach D, Bergler H
Nat Struct Mol Biol (2022) [ DOI: 10.1038/s41594-022-00832-5 Pubmed: 36097293 ]
Image sets:
Structure of substrate bound DRG1 (AFG2)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7z11
Q-score: 0.396
Prattes M, Grishkovskaya I, Hodirnau VV, Hetzmannseder C, Zisser G, Sailer C, Kargas V, Loibl M, Gerhalter M, Kofler L, Warren AJ, Stengel F, Haselbach D, Bergler H
Nat Struct Mol Biol (2022) 29 pp. 942-953 [ Pubmed: 36097293 DOI: doi:10.1038/s41594-022-00832-5 ]
- Peptide substrate (1 kDa, Protein from Saccharomyces cerevisiae S288C)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Atpase family gene 2 protein (84 kDa, Protein from Saccharomyces cerevisiae S288C)
- Afg2 hexamer (Complex from Saccharomyces cerevisiae S288C)