Vo domain of V/A-ATPase from Thermus thermophilus state1
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8yxz
Q-score: 0.452
Kishikawa JI, Nishida Y, Nakano A, Kato T, Mitsuoka K, Okazaki KI, Yokoyama K
Nat Commun (2024) 15 pp. 9883-9883 [ Pubmed: 39567487 DOI: doi:10.1038/s41467-024-53504-x ]
- Vo domain of v/a-atpase from thermus thermophilus. (300 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase, subunit k (10 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit i (72 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit c (35 kDa, Protein from Thermus thermophilus HB8)
Vo domain of V/A-ATPase from Thermus thermophilus state2
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8yy0
Q-score: 0.442
Kishikawa JI, Nishida Y, Nakano A, Kato T, Mitsuoka K, Okazaki KI, Yokoyama K
Nat Commun (2024) 15 pp. 9883-9883 [ Pubmed: 39567487 DOI: doi:10.1038/s41467-024-53504-x ]
- Vo domain of v/a-atpase from thermus thermophilus. (300 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase, subunit k (10 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit i (72 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit c (35 kDa, Protein from Thermus thermophilus HB8)
Vo domain of V/A-ATPase from Thermus thermophilus state3
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8yy1
Q-score: 0.302
Kishikawa JI, Nishida Y, Nakano A, Kato T, Mitsuoka K, Okazaki KI, Yokoyama K
Nat Commun (2024) 15 pp. 9883-9883 [ Pubmed: 39567487 DOI: doi:10.1038/s41467-024-53504-x ]
- V-type atp synthase, subunit k (7 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit c (35 kDa, Protein from Thermus thermophilus HB8)
- Vo domain of v/a-atpase from thermus thermophilus. (300 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase subunit i (71 kDa, Protein from Thermus thermophilus HB8)
Structure of single homo-hexameric Holliday junction ATP-dependent DNA helicase RuvB motor
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 8efv
Q-score: 0.556
Rish AD, Shen Z, Chen Z, Zhang N, Zheng Q, Fu TM
Nat Commun (2023) 14 pp. 3549-3549 [ Pubmed: 37322069 DOI: doi:10.1038/s41467-023-39250-6 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Phosphothiophosphoric acid-adenylate ester (523 Da, Ligand)
- Single homo-hexameric aaa+ atpase ruvb motor (Complex from Thermus thermophilus HB8)
- 49-mer dna (15 kDa, DNA from Thermus thermophilus HB8)
- Magnesium ion (24 Da, Ligand)
- Holliday junction atp-dependent dna helicase ruvb (36 kDa, Protein from Thermus thermophilus HB8)
- 51-mer dna (15 kDa, DNA from Thermus thermophilus HB8)
RuvA Holliday junction DNA complex
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 8gh8
Q-score: 0.227
Rish AD, Shen Z, Chen Z, Zhang N, Zheng Q, Fu TM
Nat Commun (2023) 14 pp. 3549-3549 [ Pubmed: 37322069 DOI: doi:10.1038/s41467-023-39250-6 ]
- Dna (34-mer) (10 kDa, DNA from synthetic construct)
- Holliday junction dna adapted from pdb 2hoi (Complex from Punavirus P1)
- Dna (34-mer) (10 kDa, DNA from synthetic construct)
- Holliday junction branch migration complex subunit ruva (14 kDa, Protein from Thermus thermophilus HB8)
- Ruva dna binding protein complexed with holliday junction dna (Complex from Thermus thermophilus HB8)
- Tetrameric ruva binding protein (Complex from Thermus thermophilus HB8)
Complex of RecF-RecR-DNA from Thermus thermophilus.
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8a93
Q-score: 0.525
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Complex of recf-recr-dna from thermus thermophilus. (180 kDa, Complex from Thermus thermophilus HB8)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecO-RecR-DNA from Thermus thermophilus.
Resolution: 6.09 Å
EM Method: Single-particle
Fitted PDBs: 8ab0
Q-score: 0.233
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Zinc ion (65 Da, Ligand)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Complex of reco-recr-dna from thermus thermophilus. (130 kDa, Complex from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecF-RecO-RecR-DNA from Thermus thermophilus (low resolution reconstruction).
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 8bpr
Q-score: 0.359
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Complex of recf-reco-recr-dna from thermus thermophilus. (205 kDa, Complex from Thermus thermophilus HB8)
- Zinc ion (65 Da, Ligand)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo1 (7 kDa, DNA from synthetic construct)
Structure of a membrane protein
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 [ Pubmed: 33905418 DOI: doi:10.1371/journal.pbio.3001231 ]
- Fab heavy chain (24 kDa, Protein from Mus musculus)
- Magnesium transporter mgte (19 kDa, Protein from Thermus thermophilus HB8)
- Fab light chain (23 kDa, Protein from Mus musculus)
- Mgte-fab complex (Complex from Thermus thermophilus)
Cryo-EM reconstruction of Thermus thermophilus bactofilin double helical filaments
Resolution: 4.2 Å
EM Method: Helical reconstruction
Fitted PDBs: 6rib
Q-score: 0.363
Deng X, Gonzalez Llamazares A, Wagstaff JM, Hale VL, Cannone G, McLaughlin SH, Kureisaite-Ciziene D, Lowe J
Nat Microbiol (2019) 4 pp. 2357-2368 [ DOI: doi:10.1038/s41564-019-0544-0 Pubmed: 31501539 ]