Minus end of the vertebrate gamma-tubulin ring complex-capped microtubule
Resolution: 23.0 Å
EM Method: Single-particle
Fitted PDBs: 9eok
Q-score: 0.036
Vermeulen BJ, Bohler A, Gao Q, Neuner A, Zupa E, Chu Z, Wurtz M, Jakle U, Gruss OJ, Pfeffer S, Schiebel E
EMBO J (2024) 43 pp. 2062-2085 [ Pubmed: 38600243 DOI: doi:10.1038/s44318-024-00087-4 ]
- Minus end of the vertebrate gamma-tubulin ring complex-capped microtubule (Complex from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Tubulin beta-4 chain (49 kDa, Protein from Xenopus laevis)
- Taxol (853 Da, Ligand)
- Tubulin alpha chain (50 kDa, Protein from Xenopus laevis)
Composite structure of dynein-dynactin-BICDR on microtubules
Resolution: 20.0 Å
EM Method: Single-particle
Fitted PDBs: 7z8f
Q-score: 0.215
Nature (2022) 610 pp. 212-216 [ DOI: doi:10.1038/s41586-022-05186-y Pubmed: 36071160 ]
- Arp1 actin related protein 1 homolog a (42 kDa, Protein from Sus scrofa)
- Dynactin subunit 3 (21 kDa, Protein from Sus scrofa)
- Capping protein (actin filament) muscle z-line, alpha 1 (33 kDa, Protein from Sus scrofa)
- Dynactin (1 MDa, Cellular component from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Complex of dynein, dynactin, and bicdr1 bound to microtubules (4 MDa, Complex)
- Cytoplasmic dynein 1 light intermediate chain 2 (54 kDa, Protein from Homo sapiens)
- Dynactin 6 (20 kDa, Protein from Sus scrofa)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Arp11 (46 kDa, Protein from Sus scrofa)
- F-actin capping protein beta subunit (30 kDa, Protein from Sus scrofa)
- Dynactin subunit 2 (44 kDa, Protein from Sus scrofa)
- Cytoplasmic dynein 1 heavy chain 1 (533 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Bicd family-like cargo adapter 1 (65 kDa, Protein from Mus musculus)
- Dynein light chain roadblock-type 1 (10 kDa, Protein from Homo sapiens)
- Dynein, cytoplasmic 1 (1 MDa, Cellular component from Homo sapiens)
- Cytoplasmic dynein 1 intermediate chain 2 (71 kDa, Protein from Homo sapiens)
- Dynactin subunit 5 (20 kDa, Protein from Sus scrofa)
- Actin, cytoplasmic 1 (41 kDa, Protein from Sus scrofa)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dynactin subunit 4 (52 kDa, Protein from Sus scrofa)
- Bicdr1 (130 kDa, Cellular component from Mus musculus)
- Dynactin subunit 1 (142 kDa, Protein from Sus scrofa)
SAGA-TBP filtered to show the position of the DUB domain
Resolution: 20.0 Å
EM Method: Single-particle
Fitted PDBs: 6tbm
Q-score: 0.08
Papai G, Frechard A, Kolesnikova O, Crucifix C, Schultz P, Ben-Shem A
Nature (2020) 577 pp. 711-716 [ Pubmed: 31969704 DOI: doi:10.1038/s41586-020-1944-2 ]
- Tata-box binding protein (tbp) (27 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Transcription and mrna export factor sus1 (11 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Saga component (Complex from Komagataella phaffii GS115)
- Polyubiquitin-b (8 kDa, Protein from Homo sapiens)
- Subunit (90 kda) of tfiid and saga complexes (80 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Subunit (17 kda) of tfiid and saga complexes, involved in rna polymerase ii transcription initiation (17 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Transcriptional coactivator hfi1/ada1 (49 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Saga-associated factor 11 (13 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Spt20 (59 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Subunit of the saga and saga-like transcriptional regulatory complexes, interacts with spt15p to act (39 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Ubiquitin carboxyl-terminal hydrolase (56 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Transcriptional regulator involved in glucose repression of gal4p-regulated genes (81 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Saga complex (Complex from Komagataella phaffii GS115)
- Saga bound to tbp (1 MDa, Complex)
- Subunit of saga histone acetyltransferase complex (79 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Water (18 Da, Ligand)
- Transcription initiation factor tfiid subunit 10 (23 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Subunit (61/68 kda) of tfiid and saga complexes (66 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Tata-box binding protein (tbp) (Complex from Komagataella phaffii GS115)
- Spt8 (34 kDa, Protein from Komagataella phaffii GS115)
- Polyubiquitin-b (Complex from Homo sapiens)
- Subunit of the saga transcriptional regulatory complex, involved in proper assembly of the complex (136 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Subunit (60 kda) of tfiid and saga complexes (54 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
- Transcription-associated protein (438 kDa, Protein from Komagataella phaffii (strain GS115 / ATCC 20864))
Density map of GluA2em desensitized state in complex with quisqualate (class 1)
Meyerson JR, Kumar J, Chittori S, Rao P, Pierson J, Bartesaghi A, Mayer ML, Subramaniam S
Nature (2014) 514 pp. 328-334 [ Pubmed: 25119039 DOI: doi:10.1038/NATURE13603 ]
- Quisqualate (Ligand from synthetic construct)
- Glua2 (370 kDa, Protein from Rattus norvegicus)
- Glua2em with quisqualate (370 kDa, Sample)
Density map of GluA2em desensitized state in complex with quisqualate (class 2)
Meyerson JR, Kumar J, Chittori S, Rao P, Pierson J, Bartesaghi A, Mayer ML, Subramaniam S
Nature (2014) 514 pp. 328-334 [ Pubmed: 25119039 DOI: doi:10.1038/NATURE13603 ]
- Quisqualate (Ligand from synthetic construct)
- Glua2 (370 kDa, Protein from Rattus norvegicus)
- Glua2em with quisqualate ligand (370 kDa, Sample)
Density map of GluA2em desensitized state in complex with quisqualate (class 3)
Meyerson JR, Kumar J, Chittori S, Rao P, Pierson J, Bartesaghi A, Mayer ML, Subramaniam S
Nature (2014) 514 pp. 328-334 [ Pubmed: 25119039 DOI: doi:10.1038/NATURE13603 ]
- Quisqualate (Ligand from synthetic construct)
- Glua2 (370 kDa, Protein from Rattus norvegicus)
- Glua2em with quisqualate ligand (370 kDa, Sample)