Molecular view of ER membrane remodeling by the Sec61/TRAP translocon.
Resolution: 2.69 Å
EM Method: Single-particle
Fitted PDBs: 8bf9
Q-score: 0.552
Karki S, Javanainen M, Rehan S, Tranter D, Kellosalo J, Huiskonen JT, Happonen L, Paavilainen V
EMBO Rep (2023) 24 pp. e57910-e57910 [ Pubmed: 37983950 DOI: doi:10.15252/embr.202357910 ]
- Ribosomal protein l19 (23 kDa, Protein from Ovis aries)
- Rl22 protein (fragment) (14 kDa, Protein from Ovis aries)
- Translocon-associated protein subunit delta (18 kDa, Protein from Ovis aries)
- Translocon-associated protein subunit gamma (21 kDa, Protein from Ovis aries)
- Ribosomal protein l23/l25 n-terminal domain-containing protein (17 kDa, Protein from Ovis aries)
- Large ribosomal subunit protein el31 (14 kDa, Protein from Ovis aries)
- Large ribosomal subunit protein ul22 (21 kDa, Protein from Ovis aries)
- Large ribosomal subunit protein ul29 (14 kDa, Protein from Ovis aries)
- Mammlian ribosome sec61 trap complex (3 MDa, Complex from Ovis aries)
- Ribosomal protein l37 (11 kDa, Protein from Ovis aries)
- Rna (156-mer) (50 kDa, RNA from Ovis aries)
- Protein transport protein sec61 subunit gamma (9 kDa, Protein from Ovis aries)
- Large ribosomal subunit protein el38 (8 kDa, Protein from Ovis aries)
- 60s ribosomal protein l39 (6 kDa, Protein from Ovis aries)
- Sec61b (2 kDa, Protein from Ovis aries)
- Translocon-associated protein subunit alpha (39 kDa, Protein from Ovis aries)
- Rl26 protein (fragment) (15 kDa, Protein from Ovis aries)
- Sec61a (52 kDa, Protein from Ovis aries)
- Rna (1766) (1 MDa, RNA from Ovis aries)
- Translocon-associated protein subunit beta (20 kDa, Protein from Ovis aries)
Signal peptide mimicry primes Sec61 for client-selective inhibition
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7zl3
Q-score: 0.243
Rehan S, Tranter D, Sharp PP, Craven GB, Lowe E, Anderl JL, Muchamuel T, Abrishami V, Kuivanen S, Wenzell NA, Jennings A, Kalyanaraman C, Strandin T, Javanainen M, Vapalahti O, Jacobson MP, McMinn D, Kirk CJ, Huiskonen JT, Taunton J, Paavilainen VO
Nat Chem Biol (2023) 19 pp. 1054-1062 [ DOI: doi:10.1038/s41589-023-01326-1 Pubmed: 37169961 ]
- Protein conducting sec61 translocon complex (3 MDa, Complex)
- Protein transport protein sec61 subunit beta (2 kDa, Protein from Ovis aries)
- Cyclic depsipeptide signal peptide mimic (1 kDa, Protein from synthetic construct)
- Protein transport protein sec61 subunit alpha (52 kDa, Protein from Ovis aries)
- Signal peptide mimic (Complex from synthetic construct)
- Protein conducting sec61 translocon complex (Complex from Ovis aries)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Ovis aries)
Structure of XBP1u-paused ribosome nascent chain complex with Sec61.
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6r7q
Q-score: 0.34
Shanmuganathan V, Schiller N, Magoulopoulou A, Cheng J, Braunger K, Cymer F, Berninghausen O, Beatrix B, Kohno K, Heijne GV, Beckmann R
eLife (2019) 8 [ Pubmed: 31246176 DOI: doi:10.7554/eLife.46267 ]
- El30 (10 kDa, Protein from Oryctolagus cuniculus)
- Es21 (9 kDa, Protein from Oryctolagus cuniculus)
- P-trna (24 kDa, RNA from Saccharomyces cerevisiae)
- Ribosomal protein es25 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein us15 (17 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s16 (16 kDa, Protein from Oryctolagus cuniculus)
- Es17 (15 kDa, Protein from Oryctolagus cuniculus)
- El42 (12 kDa, Protein from Oryctolagus cuniculus)
- Sec61 (Cellular component from Canis lupus familiaris)
- El18 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l26 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s30 (6 kDa, Protein from Oryctolagus cuniculus)
- El29 (13 kDa, Protein from Oryctolagus cuniculus)
- El38 (8 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s23 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3a (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l36 (11 kDa, Protein from Oryctolagus cuniculus)
- El39 (6 kDa, Protein from Oryctolagus cuniculus)
- El34 (12 kDa, Protein from Oryctolagus cuniculus)
- Es19 (15 kDa, Protein from Oryctolagus cuniculus)
- Ul22 (17 kDa, Protein from Oryctolagus cuniculus)
- 18s ribosomal rna (548 kDa, RNA from Oryctolagus cuniculus)
- 28s ribosomal rna (1 MDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l6 (28 kDa, Protein from Oryctolagus cuniculus)
- E-trna (24 kDa, RNA from Saccharomyces cerevisiae)
- Es24 (14 kDa, Protein from Oryctolagus cuniculus)
- Ul6 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l13 (24 kDa, Protein from Oryctolagus cuniculus)
- Us13 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s11 (17 kDa, Protein from Oryctolagus cuniculus)
- El22 (11 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l24 (14 kDa, Protein from Oryctolagus cuniculus)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Canis lupus familiaris)
- 40s ribosomal protein s6 (27 kDa, Protein from Oryctolagus cuniculus)
- El33 (12 kDa, Protein from Oryctolagus cuniculus)
- Ul30 (26 kDa, Protein from Oryctolagus cuniculus)
- Es10 (11 kDa, Protein from Oryctolagus cuniculus)
- Ul29 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s9 (predicted) (21 kDa, Protein from Oryctolagus cuniculus)
- Magnesium ion (24 Da, Ligand)
- Ul2 (26 kDa, Protein from Oryctolagus cuniculus)
- El21 (18 kDa, Protein from Oryctolagus cuniculus)
- Ul13 (23 kDa, Protein from Oryctolagus cuniculus)
- Ul11 (16 kDa, Protein from Oryctolagus cuniculus)
- Structure of xbp1u-paused ribosome nascent chain complex with sec61. (Complex)
- Us2 (24 kDa, Protein from Oryctolagus cuniculus)
- Us14 (6 kDa, Protein from Oryctolagus cuniculus)
- Ul4 (41 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s7 (21 kDa, Protein from Oryctolagus cuniculus)
- Us10 (11 kDa, Protein from Oryctolagus cuniculus)
- Messenger rna (1 kDa, RNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Ul3 (45 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s4 (29 kDa, Protein from Oryctolagus cuniculus)
- El14 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l41 (3 kDa, Protein from Oryctolagus cuniculus)
- X-box-binding protein 1 (2 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s15a (14 kDa, Protein from Oryctolagus cuniculus)
- El28 (14 kDa, Protein from Oryctolagus cuniculus)
- Trna (Cellular component from Saccharomyces cerevisiae)
- Ul23 (13 kDa, Protein from Oryctolagus cuniculus)
- X-box-binding protein 1 (Cellular component from Homo sapiens)
- Es31 (7 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s5 (21 kDa, Protein from Oryctolagus cuniculus)
- Ribosome (Complex from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (24 kDa, Protein from Oryctolagus cuniculus)
- Protein transport protein sec61 subunit beta (3 kDa, Protein from Canis lupus familiaris)
- 60s acidic ribosomal protein p0 (21 kDa, Protein from Oryctolagus cuniculus)
- El20 (20 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l15 (24 kDa, Protein from Oryctolagus cuniculus)
- El32 (15 kDa, Protein from Oryctolagus cuniculus)
- El19 (21 kDa, Protein from Oryctolagus cuniculus)
- El40 (6 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- Ul15 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l37 (10 kDa, Protein from Oryctolagus cuniculus)
- Us5 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27 (15 kDa, Protein from Oryctolagus cuniculus)
- 5s ribosomal rna (38 kDa, RNA from Oryctolagus cuniculus)
- Ribosomal protein s28 (7 kDa, Protein from Oryctolagus cuniculus)
- Mrna (Cellular component from Homo sapiens)
- Ribosomal protein l14 (16 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l11 (19 kDa, Protein from Oryctolagus cuniculus)
- Us11 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein el43 (10 kDa, Protein from Oryctolagus cuniculus)
- Es26 (11 kDa, Protein from Oryctolagus cuniculus)
- 5.8s ribosomal rna (48 kDa, RNA from Oryctolagus cuniculus)
- El8 (27 kDa, Protein from Oryctolagus cuniculus)
- El31 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s3 (25 kDa, Protein from Oryctolagus cuniculus)
- Protein transport protein sec61 subunit alpha isoform 1 (50 kDa, Protein from Canis lupus familiaris)
- Ribosomal protein l10 (predicted) (24 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein rack1 (34 kDa, Protein from Oryctolagus cuniculus)
- Us19 (14 kDa, Protein from Oryctolagus cuniculus)