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Cryo-EM structure of Pyrococcus furiosus transcription elongation complex bound to Spt4/5
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 8oki
Q-score: 0.48
Tarau D, Grunberger F, Pilsl M, Reichelt R, Heiss F, Konig S, Urlaub H, Hausner W, Engel C, Grohmann D
Nucleic Acids Res (2024) [ DOI: doi:10.1093/nar/gkae282 Pubmed: 38709902 ]
- Dna-directed rna polymerase subunit rpo1c (44 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo5 (9 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo6 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1n (103 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Rna (2 kDa, RNA from Pyrococcus furiosus DSM 3638)
- Pyrococcus furiosus rna polymerase (Complex from Pyrococcus furiosus DSM 3638)
- Transcription elongation factor spt5 (16 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Spt4/5 (Complex from Pyrococcus furiosus DSM 3638)
- Transcription elongation factor spt4 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit rpo11 (11 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo12 (5 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo7 (21 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna non-template strand (7 kDa, DNA from Pyrococcus furiosus DSM 3638)
- Dna template strand (8 kDa, DNA from Pyrococcus furiosus DSM 3638)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit rpo10 (7 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo4 (14 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo3 (31 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit beta (127 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Nucleotide strands (Complex from Pyrococcus furiosus DSM 3638)
- Transcription elongation complex with spt4/5 (Complex)
Cryo-EM structure of Pyrococcus furiosus apo form RNA polymerase open clamp conformation
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8orq
Q-score: 0.477
Tarau D, Grunberger F, Pilsl M, Reichelt R, Heiss F, Konig S, Urlaub H, Hausner W, Engel C, Grohmann D
Nucleic Acids Res (2024) [ DOI: doi:10.1093/nar/gkae282 Pubmed: 38709902 ]
- Dna-directed rna polymerase subunit rpo4 (14 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo3 (31 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1c (44 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo5 (9 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo6 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo7 (21 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Pyrococcus furiosus apo form of rna polymerase open clamp conformation (Complex from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit beta (127 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo11 (11 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1n (103 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit rpo12 (5 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit rpo10 (7 kDa, Protein from Pyrococcus furiosus DSM 3638)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8p2i
Q-score: 0.461
Tarau D, Grunberger F, Pilsl M, Reichelt R, Heiss F, Konig S, Urlaub H, Hausner W, Engel C, Grohmann D
Nucleic Acids Res (2024) [ DOI: doi:10.1093/nar/gkae282 Pubmed: 38709902 ]
- Dna-directed rna polymerase subunit rpo4 (14 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo3 (31 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1c (44 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo5 (9 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo6 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo7 (21 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Transcription elongation factor spt4 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Pyrococcus furiosus apo form of rna polymerase open clamp conformation (Complex from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit beta (127 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo11 (11 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1n (103 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit rpo12 (5 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Transcription elongation factor spt5 (16 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit rpo10 (7 kDa, Protein from Pyrococcus furiosus DSM 3638)
Cryo-EM structure of Pyrococcus furiosus apo form RNA polymerase contracted clamp conformation
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 8rbo
Q-score: 0.246
Tarau D, Grunberger F, Pilsl M, Reichelt R, Heiss F, Konig S, Urlaub H, Hausner W, Engel C, Grohmann D
Nucleic Acids Res (2024) [ DOI: doi:10.1093/nar/gkae282 Pubmed: 38709902 ]
- Dna-directed rna polymerase subunit rpo4 (14 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo3 (31 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1c (44 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo5 (9 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo6 (6 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo7 (21 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Pyrococcus furiosus apo form of rna polymerase contracted clamp conformation (Complex from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit beta (127 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo11 (11 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna-directed rna polymerase subunit rpo1n (103 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit rpo12 (5 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit rpo10 (7 kDa, Protein from Pyrococcus furiosus DSM 3638)
elongated Cascade complex from type I-A CRISPR-Cas system
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7r21
Q-score: 0.472
Ni D, Hu C, Nam KH, Terns M, Stahlberg H, Ke A
To Be Published
- Crrna (62-mer) (19 kDa, RNA from Escherichia coli)
- Elongated cascade complex from pyrococcus furiosus type i-a crispr/cas system (550 kDa, Complex)
- Crrna (62-mer) (Complex from Escherichia coli)
- Type i-a crispr-associated protein cas5 (29 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas11a (12 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas11a, cas7a and type i-a crispr-associated protein cas5 (Complex from Pyrococcus furiosus DSM 3638)
- Cas7a (36 kDa, Protein from Pyrococcus furiosus DSM 3638)
elongated Cascade complex from type I-A CRISPR-Cas system
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7r2k
Q-score: 0.324
Ni D, Hu C, Nam KH, Terns M, Stahlberg H, Ke A
To Be Published
- Elongated cascade complex from pyrococcus furiosus type i-a crispr/cas system (550 kDa, Complex)
- Crispr-associated helicase cas3 (74 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crrna (57-mer) (18 kDa, RNA from Escherichia coli)
- Cas8 (38 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Type i-a crispr-associated protein cas5 (29 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Crispr-associated endonuclease cas3-hd (27 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Cas11a (12 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Nickel (ii) ion (58 Da, Ligand)
- Cas7a (36 kDa, Protein from Pyrococcus furiosus DSM 3638)
- Dna (5'-d(p*tp*cp*cp*c)-3') (1 kDa, DNA from Escherichia coli)
- Dna (5'-d(p*tp*ap*cp*ap*ap*gp*gp*gp*a)-3') (2 kDa, DNA from Escherichia coli)
cryoEM structure of a respiratory membrane-bound hydrogenase
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6cfw
Q-score: 0.499
Yu H, Wu CH, Schut GJ, Haja DK, Zhao G, Peters JW, Adams MWW, Li H
Cell (2018) 173 pp. 1636- [ DOI: doi:10.1016/j.cell.2018.03.071 Pubmed: 29754813 ]
- Mbh subunit (13 kDa, Protein from Pyrococcus furiosus COM1)
- Monovalent cation/h+ antiporter subunit b (15 kDa, Protein from Pyrococcus furiosus COM1)
- Monovalent cation/h+ antiporter subunit g (13 kDa, Protein from Pyrococcus furiosus COM1)
- Mbh subunit (11 kDa, Protein from Pyrococcus furiosus COM1)
- Probable membrane-bound hydrogenase subunit mbhj (18 kDa, Protein from Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1))
- Monovalent cation/h+ antiporter subunit e (18 kDa, Protein from Pyrococcus furiosus COM1)
- Monovalent cation/h+ antiporter subunit f (9 kDa, Protein from Pyrococcus furiosus COM1)
- Iron/sulfur cluster (351 Da, Ligand)
- Membrane-bound hydrogenase subunit beta (20 kDa, Protein from Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1))
- Nadh-plastoquinone oxidoreductase subunit (15 kDa, Protein from Pyrococcus furiosus COM1)
- Monovalent cation/h+ antiporter subunit c (12 kDa, Protein from Pyrococcus furiosus COM1)
- Formyl[bis(hydrocyanato-1kappac)]ironnickel(fe-ni) (195 Da, Ligand)
- Mbh13 nadh dehydrogenase subunit (35 kDa, Protein from Pyrococcus furiosus COM1)
- Mbh subunit (10 kDa, Protein from Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1))
- Membrane-bound hydrogenase subunit alpha (43 kDa, Protein from Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1))
- Membrane-bound hydrogenase (mbh) complex (Complex from Pyrococcus furiosus)
- Monovalent cation/h+ antiporter subunit d (55 kDa, Protein from Pyrococcus furiosus COM1)
The archaellum of Pyrococcus furiosus
Resolution: 4.2 Å
EM Method: Helical reconstruction
Fitted PDBs: 5o4u
Q-score: 0.387
Daum B, Vonck J, Bellack A, Chaudhury P, Reichelt R, Albers SV, Rachel R, Kuhlbrandt W
eLife (2017) 6 [ DOI: doi:10.7554/eLife.27470 Pubmed: 28653905 ]
- Archaellum (21 kDa, Complex from Pyrococcus furiosus DSM 3638)
- Flagellin (22 kDa, Protein from Pyrococcus furiosus DSM 3638)