SARS-CoV-2 Spike (dimers) in complex with six Fu2 nanobodies
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 7ns6
Q-score: 0.372
Hanke L, Das H, Sheward DJ, Perez Vidakovics L, Urgard E, Moliner-Morro A, Kim C, Karl V, Pankow A, Smith NL, Porebski B, Fernandez-Capetillo O, Sezgin E, Pedersen GK, Coquet JM, Hallberg BM, Murrell B, McInerney GM
Nat Commun (2022) 13 pp. 155-155 [ DOI: doi:10.1038/s41467-021-27610-z Pubmed: 35013189 ]
- Fu2 nanobody (15 kDa, Protein from Vicugna pacos)
- Spike rbd (two molecules) in complex with two fu2 nanobodies (95 kDa, Complex)
- Fu2 nanobody (Complex from Vicugna pacos)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike, fibritin (Complex from Enterobacteria phage T4)
- Spike glycoprotein,fibritin (142 kDa, Protein from Enterobacteria phage T4)
Structural basis of Integrator-mediated transcription regulation
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7pks
Q-score: 0.278
Fianu I, Chen Y, Dienemann C, Dybkov O, Linden A, Urlaub H, Cramer P
Science (2021) 374 pp. 883-887 [ Pubmed: 34762484 DOI: doi:10.1126/science.abk0154 ]
- Zinc ion (65 Da, Ligand)
- Integrator complex subunit 4 (108 kDa, Protein from Homo sapiens)
- Unknown (2 kDa, Protein from Homo sapiens)
- Non-template dna (14 kDa, DNA from Human immunodeficiency virus 1)
- Serine/threonine-protein phosphatase 2a catalytic subunit alpha isoform (35 kDa, Protein from Homo sapiens)
- Serine/threonine-protein phosphatase 2a 65 kda regulatory subunit a alpha isoform (65 kDa, Protein from Homo sapiens)
- Non-template dna (Complex from Human immunodeficiency virus 1)
- Rpbi c-terminal domain peptide (1 kDa, Protein from domestic pig)
- Integrator complex subunit 6 (100 kDa, Protein from Homo sapiens)
- Integrator complex subunit 7 (106 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from domestic pig)
- Dna template (14 kDa, DNA from Human immunodeficiency virus 1)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from domestic pig)
- Negative elongation factor a (57 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from domestic pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from domestic pig)
- Integrator complex subunit 8 (113 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from domestic pig)
- Tar rna (5 kDa, RNA from Human immunodeficiency virus 1)
- Dsif (Complex from Homo sapiens)
- Pec-integrator-pp2a complex (1 MDa, Complex)
- Negative elongation factor b (68 kDa, Protein from Homo sapiens)
- Integrator complex subunit 5 (108 kDa, Protein from Homo sapiens)
- Integrator complex subunit 2 (134 kDa, Protein from Homo sapiens)
- Negative elongation factor e (1 kDa, Protein from Homo sapiens)
- Nelf (Complex from Homo sapiens)
- Rna (Complex from Human immunodeficiency virus 1)
- Rna polymerase ii subunit k (7 kDa, Protein from domestic pig)
- Magnesium ion (24 Da, Ligand)
- Integrator complex subunit 9 (73 kDa, Protein from Homo sapiens)
- Manganese (ii) ion (54 Da, Ligand)
- Integrator complex subunit 11 (67 kDa, Protein from Homo sapiens)
- Human integrator-pp2a complex (Complex from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from domestic pig)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from domestic pig)
- Negative elongation factor c/d (68 kDa, Protein from Homo sapiens)
- Rna_pol_l_2 domain-containing protein (13 kDa, Protein from domestic pig)
- Integrator complex subunit 1 (244 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from domestic pig)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from domestic pig)
- Template dna (Complex from Human immunodeficiency virus 1)
- Pol ii-ec (Complex from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from domestic pig)
ATPgS bound TnsC filament from ShCAST system
Resolution: 3.2 Å
EM Method: Helical reconstruction
Fitted PDBs: 7m99
Q-score: 0.477
Park JU, Tsai AW, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) 373 pp. 768-774 [ DOI: doi:10.1126/science.abi8976 Pubmed: 34385391 ]
- Dna (5'-d(p*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*ap*a)-3') (6 kDa, DNA from synthetic construct)
- Dna (5'-d(p*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*t)-3') (6 kDa, DNA from synthetic construct)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Tnsc (31 kDa, Protein from Scytonema hofmannii)
- Helical filament of tnsc monomers bound to dna (45 MDa, Complex from Scytonema hofmannii)
ADP-AlF3 bound TnsC structure from ShCAST system
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7m9a
Q-score: 0.342
Park JU, Tsai AW, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) 373 pp. 768-774 [ DOI: doi:10.1126/science.abi8976 Pubmed: 34385391 ]
- Dna (27-mer) (8 kDa, DNA from synthetic construct)
- Head-to-head dimer of tnsc hexamers bound to dna (400 kDa, Complex from Scytonema hofmannii)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Tnsc (31 kDa, Protein from Scytonema hofmannii)
- Dna (27-mer) (8 kDa, DNA from synthetic construct)
ADP-AlF3 bound TnsC structure in open form
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7m9c
Q-score: 0.286
Park JU, Tsai AW, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) 373 pp. 768-774 [ DOI: doi:10.1126/science.abi8976 Pubmed: 34385391 ]
- Dna (34-mer) (10 kDa, DNA from synthetic construct)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Tnsc (31 kDa, Protein from Scytonema hofmannii)
- Dna (34-mer) (10 kDa, DNA from synthetic construct)
- Head to head dimer of tnsc hexameters bound to dna (400 kDa, Complex from Scytonema hofmannii)
ATP bound TnsC filament structure from ShCAST system
Park J, Tsai A, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) [ DOI: doi:10.1126/science.abi8976 ]
- Helical filament of tnsc monomers bound to dna (45 MDa, Complex from Scytonema hofmannii)
- Tnsc (Protein from Scytonema hofmannii)
Head-to-head filament of TnsC from ShCAST system
Park JU, Tsai AW, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) 373 pp. 768-774 [ DOI: doi:10.1126/science.abi8976 Pubmed: 34385391 ]
- Head-to-head filament of tnsc on double-stranded dna (45 MDa, Complex from Scytonema hofmannii)
- Tnsc (Protein from Scytonema hofmannii)
ATP-bound TnsC-TniQ complex from ShCAST system
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7n6i
Q-score: 0.299
Park JU, Tsai AW, Mehrotra E, Petassi MT, Hsieh SC, Ke A, Peters JE, Kellogg EH
Science (2021) 373 pp. 768-774 [ DOI: doi:10.1126/science.abi8976 Pubmed: 34385391 ]
- Tniq (Protein from Scytonema hofmannii)
- Helical filament of tnsc monomers bound to dna and tniq (400 kDa, Complex from Scytonema hofmannii)
- Tnsc (Protein from Scytonema hofmannii)
Focused refined map at the interface of the transcribing Pol II-U1 snRNP complex with 145-nt RNA
Zhang S, Aibara S, Vos SM, Agafonov DE, Luhrmann R, Cramer P
Science (2021) 371 pp. 305-309 [ DOI: doi:10.1126/science.abf1870 Pubmed: 33446560 ]
Focused refined map of U1 snRNP of the transcribing Pol II-U1 snRNP complex with 145-nt RNA
Zhang S, Aibara S, Vos SM, Agafonov DE, Luhrmann R, Cramer P
Science (2021) 371 pp. 305-309 [ DOI: doi:10.1126/science.abf1870 Pubmed: 33446560 ]