Cryo-EM structure of TtdAgo-guide DNA-target DNA complex
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wd8
Q-score: 0.593
Wang L, Chen W, Zhang C, Xie X, Huang F, Chen M, Mao W, Yu N, Wei Q, Ma L, Li Z
Mol Cell (2024) 84 pp. 675-686.e4 [ Pubmed: 38295801 DOI: doi:10.1016/j.molcel.2024.01.004 ]
- Target dna (5 kDa, DNA from Thermus thermophilus)
- Dna binding protein (Complex)
- Cryo-em structure of ttdago-guide dna-target dna complex (Complex from Thermus thermophilus)
- Guide dna (5 kDa, DNA from Thermus thermophilus)
- Argonaute family protein (87 kDa, Protein from Thermococcus thioreducens)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (Complex)
Structure of AHIR determined by cryoEM at 100 keV
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8pve
Q-score: 0.526
McMullan G, Naydenova K, Mihaylov D, Yamashita K, Peet MJ, Wilson H, Dickerson JL, Chen S, Cannone G, Lee Y, Hutchings KA, Gittins O, Sobhy MA, Wells T, El-Gomati MM, Dalby J, Meffert M, Schulze-Briese C, Henderson R, Russo CJ
PNAS (2023) 120 pp. e2312905120-e2312905120 [ Pubmed: 38011573 DOI: doi:10.1073/pnas.2312905120 ]
A3B3 ring of V1-ATPase on EG-grid
Fujita J, Makino F, Asahara H, Moriguchi M, Kumano S, Anzai I, Kishikawa JI, Matsuura Y, Kato T, Namba K, Inoue T
Sci Rep (2023) 13 pp. 2279-2279 [ DOI: doi:10.1038/s41598-023-29396-0 Pubmed: 36755111 ]
- The chimeric complex of a3b3 ring of v-atpase from thermus thermophilus and df subunit of v-atpase from human. (395 kDa, Complex)
- A subunit of v1-atpase from thermus thermophilus. (Protein from Thermus thermophilus HB8)
- Df subunit from human (Complex from Homo sapiens)
- B subunit of v1-atpase from thermus thermophilus. (Protein from Thermus thermophilus HB8)
- The chimeric complex of a3b3 ring from thermus thermophilus (Complex from Thermus thermophilus)
Lon protease from Thermus Thermophilus
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7p6u
Q-score: 0.247
FEBS Lett (2021) 595 pp. 2691-2700 [ Pubmed: 34591981 DOI: doi:10.1002/1873-3468.14199 ]
- Lon protease (89 kDa, Protein from Thermus thermophilus)
- (unk)(unk)(unk)(unk)(unk)(unk)(unk) (613 Da, Protein from Thermus thermophilus)
- Lon protease from thermus thermophilus (Complex from Thermus thermophilus)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
Cryo-EM structure of the MgtE Mg2+ channel under Mg2+-free conditions
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6lbh
Q-score: 0.461
Jin F, Sun M, Fujii T, Yamada Y, Wang J, Maturana AD, Wada M, Su S, Ma J, Takeda H, Kusakizako T, Tomita A, Nakada-Nakura Y, Liu K, Uemura T, Nomura Y, Nomura N, Ito K, Nureki O, Namba K, Iwata S, Yu Y, Hattori M
PLoS Biol (2021) 19 pp. e3001231-e3001231 [ DOI: doi:10.1371/journal.pbio.3001231 Pubmed: 33905418 ]
- Fab heavy chain (24 kDa, Protein from Mus musculus)
- Mgte-fab complex (Complex from Thermus thermophilus)
- Fab light chain (23 kDa, Protein from Mus musculus)
- Magnesium transporter mgte (19 kDa, Protein from Thermus thermophilus HB8)
CryoEM structure of gp55-dependent RNA polymerase-promoter open complex
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7d7c
Q-score: 0.444
Shi J, Wen A, Jin S, Gao B, Huang Y, Feng Y
Nat Commun (2021) 12 pp. 1131-1131 [ DOI: doi:10.1038/s41467-021-21392-0 Pubmed: 33602900 ]
- Dna (nontemplate strand) (18 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Gp55-dependent rna polymerase-promoter open complex (Complex from Thermus thermophilus)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli 1-392-07 S4 C3)
- Dna (template strand) (18 kDa, DNA from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Gp55 (21 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
CryoEM structure of gp45-dependent transcription activation complex
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7d7d
Q-score: 0.316
Shi J, Wen A, Jin S, Gao B, Huang Y, Feng Y
Nat Commun (2021) 12 pp. 1131-1131 [ DOI: doi:10.1038/s41467-021-21392-0 Pubmed: 33602900 ]
- Dna (template strand) (18 kDa, DNA from Escherichia virus T4)
- Dna polymerase clamp (25 kDa, Protein from Enterobacteria phage T4)
- Magnesium ion (24 Da, Ligand)
- Gp45-dependent transcription activation complex (Complex from Thermus thermophilus)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli 1-392-07 S4 C3)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli)
- Rna polymerase-associated protein gp33 (15 kDa, Protein from Enterobacteria phage T4)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli)
- Dna (nontemplate strand) (18 kDa, DNA from Escherichia virus T4)
- Zinc ion (65 Da, Ligand)
- Gp55 (21 kDa, Protein from Escherichia virus T4)
Resolution: 5.0 Å
EM Method: Single-particle
Fitted PDBs: 6m6a
Q-score: 0.256
Shi J, Wen A, Zhao M, Jin S, You L, Shi Y, Dong S, Hua X, Zhang Y, Feng Y
Nucleic Acids Res (2020) 48 pp. 11762-11772 [ DOI: doi:10.1093/nar/gkaa904 Pubmed: 33068413 ]
- Dna-directed rna polymerase subunit alpha (35 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Template strand dna (19 kDa, DNA from Thermus thermophilus)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Dna-directed rna polymerase subunit beta (125 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus transcription-coupled dna repair complex (Complex from Thermus thermophilus)
- Magnesium ion (24 Da, Ligand)
- Transcription-repair-coupling factor (109 kDa, Protein from Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
- Nontemplate strand dna (19 kDa, DNA from Thermus thermophilus)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (170 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 6m6b
Q-score: 0.357
Shi J, Wen A, Zhao M, Jin S, You L, Shi Y, Dong S, Hua X, Zhang Y, Feng Y
Nucleic Acids Res (2020) 48 pp. 11762-11772 [ DOI: doi:10.1093/nar/gkaa904 Pubmed: 33068413 ]
- Dna-directed rna polymerase subunit alpha (35 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Template strand dna (19 kDa, DNA from Thermus thermophilus)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Dna-directed rna polymerase subunit beta (125 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus transcription-repair coupling complex (Complex from Thermus thermophilus)
- Magnesium ion (24 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Transcription-repair-coupling factor (109 kDa, Protein from Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
- Nontemplate strand dna (19 kDa, DNA from Thermus thermophilus)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta' (170 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
CryoEM structure of Thermus thermophilus RNA polymerase elongation complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6m6c
Q-score: 0.519
Shi J, Wen A, Zhao M, Jin S, You L, Shi Y, Dong S, Hua X, Zhang Y, Feng Y
Nucleic Acids Res (2020) 48 pp. 11762-11772 [ DOI: doi:10.1093/nar/gkaa904 Pubmed: 33068413 ]
- Nontemplate strand dna (19 kDa, DNA from Thermus thermophilus)
- Dna-directed rna polymerase subunit beta (125 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Rna (6 kDa, RNA from Thermus thermophilus)
- Dna-directed rna polymerase subunit alpha (35 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Thermus thermophilus rna polymerase elongation complex (Complex from Thermus thermophilus)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Dna-directed rna polymerase subunit beta' (170 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Zinc ion (65 Da, Ligand)
- Template strand dna (19 kDa, DNA from Thermus thermophilus)