E. coli DNA gyrase bound to a DNA crossover
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8qdx
Q-score: 0.451
Vayssieres M, Marechal N, Yun L, Lopez Duran B, Murugasamy NK, Fogg JM, Zechiedrich L, Nadal M, Lamour V
Science (2024) 384 pp. 227-232 [ DOI: doi:10.1126/science.adl5899 Pubmed: 38603484 ]
- Dsdna minicircles (Complex from synthetic construct)
- Dna gyrase subunit b (90 kDa, Protein from Escherichia coli)
- Dna gyrase subunit a (97 kDa, Protein from Escherichia coli)
- Dna minicircle (36 kDa, DNA from synthetic construct)
- E. coli dna gyrase (Complex from Escherichia coli)
- Dna minicircle (35 kDa, DNA from synthetic construct)
- E. coli dna gyrase in complex with dna minicircles (745 kDa, Complex)
E. coli DNA gyrase bound to a linear part of a DNA minicircle
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8qqs
Q-score: 0.519
Vayssieres M, Marechal N, Yun L, Lopez Duran B, Murugasamy NK, Fogg JM, Zechiedrich L, Nadal M, Lamour V
Science (2024) 384 pp. 227-232 [ DOI: doi:10.1126/science.adl5899 Pubmed: 38603484 ]
- Dsdna minicircles (Complex from synthetic construct)
- Dna (30-mer) (9 kDa, DNA from synthetic construct)
- Dna gyrase subunit b (90 kDa, Protein from Escherichia coli)
- Dna gyrase subunit a (97 kDa, Protein from Escherichia coli)
- Dna (30-mer) (9 kDa, DNA from synthetic construct)
- E. coli dna gyrase (Complex from Escherichia coli)
- E. coli dna gyrase in complex with dsdna minicircles (745 kDa, Complex)
Asymetric subunit of E. coli DNA gyrase bound to a linear part of a DNA minicircle
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8qqu
Q-score: 0.542
Vayssieres M, Marechal N, Yun L, Lopez Duran B, Murugasamy NK, Fogg JM, Zechiedrich L, Nadal M, Lamour V
Science (2024) 384 pp. 227-232 [ DOI: doi:10.1126/science.adl5899 Pubmed: 38603484 ]
- Dsdna minicircles (Complex from synthetic construct)
- Dna gyrase subunit b (90 kDa, Protein from Escherichia coli)
- Dna gyrase subunit a (97 kDa, Protein from Escherichia coli)
- Dna (16-mer) (4 kDa, DNA from synthetic construct)
- E. coli dna gyrase (Complex from Escherichia coli)
- Dna (16-mer) (4 kDa, DNA from synthetic construct)
- E. coli dna gyrase in complex with dsdna minicircles (745 kDa, Complex)
Cytoplasmic dynein-A heavy chain bound to dynactin-p150glued and IC-LC tower
Resolution: 9.4 Å
EM Method: Single-particle
Fitted PDBs: 8pr0
Q-score: 0.169
Singh K, Lau CK, Manigrasso G, Gama JB, Gassmann R, Carter AP
Science (2024) 383 pp. eadk8544-eadk8544 [ Pubmed: 38547289 DOI: doi:10.1126/science.adk8544 ]
- Cytoplasmic dynein 1 intermediate chain 2 (68 kDa, Protein from Homo sapiens)
- Cytoplasmic dynein-a heavy chain bound to dynactin p150 and ic-lc tower (Complex from Homo sapiens)
- Cytoplasmic dynein 1 light intermediate chain 2 (54 kDa, Protein from Homo sapiens)
- Dynein light chain tctex-type 1 (12 kDa, Protein from Homo sapiens)
- Dynein light chain 1, cytoplasmic (10 kDa, Protein from Homo sapiens)
- Dynactin subunit 1 (142 kDa, Protein from Sus scrofa)
- Cytoplasmic dynein 1 heavy chain 1 (533 kDa, Protein from Homo sapiens)
Cytoplasmic dynein-B heavy chain bound to IC-LC tower
Resolution: 8.2 Å
EM Method: Single-particle
Fitted PDBs: 8pr1
Q-score: 0.193
Singh K, Lau CK, Manigrasso G, Gama JB, Gassmann R, Carter AP
Science (2024) 383 pp. eadk8544-eadk8544 [ Pubmed: 38547289 DOI: doi:10.1126/science.adk8544 ]
- Cytoplasmic dynein 1 intermediate chain 2 (68 kDa, Protein from Homo sapiens)
- Cytoplasmic dynein-a heavy chain bound to dynactin p150 and ic-lc tower (Complex from Homo sapiens)
- Cytoplasmic dynein 1 light intermediate chain 2 (54 kDa, Protein from Homo sapiens)
- Dynein light chain tctex-type 1 (12 kDa, Protein from Homo sapiens)
- Dynein light chain 1, cytoplasmic (10 kDa, Protein from Homo sapiens)
- Dynein light chain roadblock-type 1 (10 kDa, Protein from Homo sapiens)
- Cytoplasmic dynein 1 heavy chain 1 (533 kDa, Protein from Homo sapiens)
Composite structure of Dynein-Dynactin-JIP3-LIS1
Resolution: 10.0 Å
EM Method: Single-particle
Fitted PDBs: 8ptk
Q-score: 0.202
Singh K, Lau CK, Manigrasso G, Gama JB, Gassmann R, Carter AP
Science (2024) 383 pp. eadk8544-eadk8544 [ Pubmed: 38547289 DOI: doi:10.1126/science.adk8544 ]
- Dynactin subunit 4 (52 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dynein light chain 1, cytoplasmic (10 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Sus scrofa)
- C-jun-amino-terminal kinase-interacting protein 3 (65 kDa, Protein from Homo sapiens)
- Dynein and jip3 (Complex from Homo sapiens)
- Arp1 actin related protein 1 homolog a (42 kDa, Protein from Sus scrofa)
- Cytoplasmic dynein 1 light intermediate chain 2 (54 kDa, Protein from Homo sapiens)
- Dynein light chain tctex-type 1 (12 kDa, Protein from Homo sapiens)
- Dynactin subunit 3 (21 kDa, Protein from Sus scrofa)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Capping protein (actin filament) muscle z-line, alpha 1 (33 kDa, Protein from Sus scrofa)
- Dynactin 6 (20 kDa, Protein from Sus scrofa)
- Dynactin subunit 2 (44 kDa, Protein from Sus scrofa)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Composite structure of dynein-dynactin-jip3-lis1 (Complex)
- Cytoplasmic dynein 1 intermediate chain 2 (68 kDa, Protein from Homo sapiens)
- Dynactin subunit 5 (20 kDa, Protein from Sus scrofa)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- F-actin-capping protein subunit beta (30 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Arp11 (46 kDa, Protein from Sus scrofa)
- Dynactin subunit 1 (142 kDa, Protein from Sus scrofa)
- Dynein light chain roadblock-type 1 (10 kDa, Protein from Homo sapiens)
- Cytoplasmic dynein 1 heavy chain 1 (533 kDa, Protein from Homo sapiens)
- Platelet-activating factor acetylhydrolase ib subunit beta (46 kDa, Protein from Homo sapiens)
- Dynactin subunits (Complex from Sus scrofa)
Cryo-EM Structure of the human minor pre-B complex (pre-precatalytic spliceosome) U12 snRNP part
Resolution: 4.66 Å
EM Method: Single-particle
Fitted PDBs: 8y7e
Q-score: 0.004
Bai R, Yuan M, Zhang P, Luo T, Shi Y, Wan R
Science (2024) 383 pp. 1245-1252 [ Pubmed: 38484052 DOI: doi:10.1126/science.adn7272 ]
- Zinc ion (65 Da, Ligand)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
- Sodium channel modifier 1 (25 kDa, Protein from Homo sapiens)
- U12 snrna (48 kDa, RNA from Homo sapiens)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Human minor pre-b complex (u12 snrnp part) (1 MDa, Complex from Homo sapiens)
- Pre-mrna (89 kDa, RNA from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:Pomalidomide:SD40
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ Pubmed: 38484051 DOI: doi:10.1126/science.adk4422 ]
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:PT-179:SD40, conformation 1
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ Pubmed: 38484051 DOI: doi:10.1126/science.adk4422 ]
Map from local refinement (focused on CRBN) of DDB1dB:CRBN:PT-179:SD40, conformation 2
Mercer JAM, DeCarlo SJ, Roy Burman SS, Sreekanth V, Nelson AT, Hunkeler M, Chen PJ, Donovan KA, Kokkonda P, Tiwari PK, Shoba VM, Deb A, Choudhary A, Fischer ES, Liu DR
Science (2024) 383 pp. eadk4422-eadk4422 [ Pubmed: 38484051 DOI: doi:10.1126/science.adk4422 ]