Resolution: 4.7 Å
EM Method: Single-particle
Fitted PDBs: 7wzr
Q-score: 0.275
Zhang Q, Wang P, Wu T, Zhang Y, Zheng Z, Zhou S, Qian D, Wang X, Cai G
Cell Discov (2022) 8 pp. 98-98 [ Pubmed: 36175395 DOI: doi:10.1038/s41421-022-00461-8 ]
- Serine/threonine-protein kinase mec1 (273 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna damage checkpoint protein lcd1 (86 kDa, Protein from Saccharomyces cerevisiae S288C)
- Complex of mec1 and ddc2 (359 kDa, Complex from Saccharomyces cerevisiae)
Mediator-PIC Early (Tail A + Upstream DNA Activator)
Resolution: 7.7 Å
EM Method: Single-particle
Fitted PDBs: 7uik
Q-score: 0.091
Gorbea Colon JJ, Palao 3rd L, Chen SF, Kim HJ, Snyder L, Chang YW, Tsai KL, Murakami K
Mol Cell (2023) 83 pp. 574- [ Pubmed: 36731470 DOI: doi:10.1016/j.molcel.2023.01.011 ]
- Dna (38-mer) (11 kDa, DNA from Saccharomyces cerevisiae)
- Regulatory protein gal4 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Med-picearly (taila+activator & dna class 1) (Complex from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 3 (43 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 14 (27 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 16 (111 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 15 (120 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 2 (47 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 5 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
Mediator-PIC Early (Composite Model)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7uio
Q-score: 0.239
Gorbea Colon JJ, Palao 3rd L, Chen SF, Kim HJ, Snyder L, Chang YW, Tsai KL, Murakami K
Mol Cell (2023) 83 pp. 574- [ Pubmed: 36731470 DOI: doi:10.1016/j.molcel.2023.01.011 ]
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Zinc ion (65 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae S288C)
- Med-picearly (Complex from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 15 (120 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (37-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 5 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
- Alanine (89 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae S288C)
- Aspartic acid (133 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Regulatory protein gal4 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 16 (111 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 2 (47 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription elongation factor s-ii (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 3 (43 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb1 (162 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna (38-mer) (11 kDa, DNA from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb1 (2 kDa, Protein from Saccharomyces cerevisiae S288C)
- Threonine (119 Da, Ligand)
- Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of MEC1-DDC2-MMS
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7wzw
Q-score: 0.227
Zhang Q, Wang P, Wu T, Zhang Y, Zheng Z, Zhou S, Qian D, Wang X, Cai G
Cell Discov (2022) 8 pp. 98-98 [ Pubmed: 36175395 DOI: doi:10.1038/s41421-022-00461-8 ]
- Serine/threonine-protein kinase mec1 (273 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna damage checkpoint protein lcd1 (86 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mec1-ddc2 (Complex from Saccharomyces cerevisiae)
Cryo-EM structure of the polyphosphate polymerase VTC complex(Vtc4/Vtc3/Vtc1)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8i6v
Q-score: 0.494
To Be Published
- Cryo-em structure of the polyphosphate polymerase vtc complex(vtc4/vtc3/vtc1) (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Water (18 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Triphosphate (257 Da, Ligand)
- Vacuolar transporter chaperone complex subunit 1 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Phosphate ion (94 Da, Ligand)
- Vacuolar transporter chaperone complex subunit 4 (83 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Manganese (ii) ion (54 Da, Ligand)
- Vacuolar transporter chaperone 3 complex subunit 3 (96 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Core Mediator-PICearly (Copy A)
Gorbea Colon JJ, Palao 3rd L, Chen SF, Kim HJ, Snyder L, Chang YW, Tsai KL, Murakami K
Mol Cell (2023) 83 pp. 574- [ Pubmed: 36731470 DOI: doi:10.1016/j.molcel.2023.01.011 ]
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae S288C)
- Core mediator-picearly (copy a) (Complex from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription elongation factor s-ii (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb1 (162 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb1 (2 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
Gorbea Colon JJ, Palao 3rd L, Chen SF, Kim HJ, Snyder L, Chang YW, Tsai KL, Murakami K
Mol Cell (2023) 83 pp. 574- [ Pubmed: 36731470 DOI: doi:10.1016/j.molcel.2023.01.011 ]
- Mediator of rna polymerase ii transcription subunit 3 (43 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 16 (111 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 15 (120 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 2 (47 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 5 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator-pic early (Complex from Saccharomyces cerevisiae)
- Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
Gorbea Colon JJ, Palao 3rd L, Chen SF, Kim HJ, Snyder L, Chang YW, Tsai KL, Murakami K
Mol Cell (2023) 83 pp. 574- [ Pubmed: 36731470 DOI: doi:10.1016/j.molcel.2023.01.011 ]
- Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator-pic early (Complex from Saccharomyces cerevisiae)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae S288C)
- Transcription elongation factor s-ii (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae S288C)
- Mediator of rna polymerase ii transcription subunit 14 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of SAM-Tom40 intermediate complex
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7vku
Q-score: 0.509
Takeda H, Tsutsumi A, Kikkawa M, Endo T
To Be Published
- Mitochondrial import receptor subunit tom40 (42 kDa, Protein from Saccharomyces cerevisiae S288C)
- Sorting assembly machinery 37 kda subunit (37 kDa, Protein from Saccharomyces cerevisiae S288C)
- Sorting assembly machinery 35 kda subunit (37 kDa, Protein from Saccharomyces cerevisiae S288C)
- Sam-tom40 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Sorting assembly machinery 50 kda subunit (54 kDa, Protein from Saccharomyces cerevisiae S288C)