Cryo-EM structure of the aspartate:alanine antiporter AspT WT
Nanatani K, Kanno R, Kawabata T, Watanabe S, Hidaka M, Yamanaka T, Toda K, Fujiki T, Kunii K, Miyamoto A, Chiba F, Ogasawara S, Murata T, Humbel BM, Inaba K, Mitsuoka K, Guan L, Abe K, Yamamoto M, Koshiba S
To Be Published
- Aspartate/alanine antiporter (57 kDa, Protein from Tetragenococcus halophilus)
- Aspartate:alanine antiporter aspt (58 kDa, Cellular component from Tetragenococcus halophilus)
- Aspartic acid (133 Da, Ligand)
Cryo-EM structure of the aspartate:alanine antiporter AspT mutant L60C
Resolution: 3.56 Å
EM Method: Single-particle
Fitted PDBs: 8xw5
Q-score: 0.472
Nanatani K, Kanno R, Kawabata T, Watanabe S, Hidaka M, Yamanaka T, Toda K, Fujiki T, Kunii K, Miyamoto A, Chiba F, Ogasawara S, Murata T, Humbel BM, Inaba K, Mitsuoka K, Guan L, Abe K, Yamamoto M, Koshiba S
To Be Published
Cryo-EM structure of human pannexin-3 protomer
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9kom
Q-score: 0.486
Tsuyama T, Teramura R, Mitsuoka K, Kishikawa JI, Yokoyama K
Biochem Biophys Res Commun (2025) 745 pp. 151227-151227 [ DOI: doi:10.1016/j.bbrc.2024.151227 Pubmed: 39721314 ]
- Pannexin-3 (45 kDa, Protein from Homo sapiens)
- Pannexin-3 protomer (Complex from Homo sapiens)
Cryo-EM structure of human pannexin-3 heptamer
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9krg
Q-score: 0.434
Tsuyama T, Teramura R, Mitsuoka K, Kishikawa JI, Yokoyama K
Biochem Biophys Res Commun (2025) 745 pp. 151227-151227 [ DOI: doi:10.1016/j.bbrc.2024.151227 Pubmed: 39721314 ]
- Pannexin-3 heptamer (Complex from Homo sapiens)
- Pannexin-3 (45 kDa, Protein from Homo sapiens)
Structure of photosynthetic LH1-RC complex from the purple bacterium Blastochloris tepida
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 9j2f
Q-score: 0.725
Kimura Y, Kanno R, Mori K, Matsuda Y, Seto R, Takenaka S, Mino H, Ohkubo T, Honda M, Sasaki YC, Kishikawa J, Mitsuoka K, Mio K, Hall M, Purba ER, Mochizuki T, Mizoguchi A, Humbel BM, Madigan MT, Wang-Otomo Z-Y, Tani K
To Be Published
- Light-harvesting protein gamma1 (5 kDa, Protein from Blastochloris tepida)
- Fe (iii) ion (55 Da, Ligand)
- Photosynthetic reaction center subunit h (28 kDa, Protein from Blastochloris tepida)
- Ubiquinone-8 (727 Da, Ligand)
- Reaction center protein m chain (37 kDa, Protein from Blastochloris tepida)
- Light-harvesting protein b-1015 gamma chain (5 kDa, Protein from Blastochloris tepida)
- 15-cis-1,2-dihydroneurosporene (540 Da, Ligand)
- Photosynthetic lh1-rc complex of blastochloris tepida (Complex from Blastochloris tepida)
- Bacteriochlorophyll b (909 Da, Ligand)
- Heme c (618 Da, Ligand)
- Antenna complex alpha/beta subunit domain-containing protein (7 kDa, Protein from Blastochloris tepida)
- Antenna complex alpha/beta subunit domain-containing protein (7 kDa, Protein from Blastochloris tepida)
- Reaction center protein l chain (30 kDa, Protein from Blastochloris tepida)
- Diacyl glycerol (625 Da, Ligand)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- All-trans-1,2-dihydroneurosporene (540 Da, Ligand)
- Water (18 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Photosynthetic reaction center cytochrome c subunit (39 kDa, Protein from Blastochloris tepida)
- Cardiolipin (1 kDa, Ligand)
- Bacteriopheophytin b (887 Da, Ligand)
- Menaquinone-7 (648 Da, Ligand)
The isolated Vo domain of V/A-ATPase from Thermus thermophilus.
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8ywt
Q-score: 0.476
Kishikawa JI, Nishida Y, Nakano A, Kato T, Mitsuoka K, Okazaki KI, Yokoyama K
Nat Commun (2024) 15 pp. 9883-9883 [ DOI: doi:10.1038/s41467-024-53504-x Pubmed: 39567487 ]
- V-type atp synthase subunit e (20 kDa, Protein from Thermus thermophilus HB8)
- The isolated vo domain of v/a-atpase from thermus thermophilus (300 kDa, Complex from Thermus thermophilus HB8)
- V-type atp synthase, subunit (vapc-therm) (13 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase subunit i (72 kDa, Protein from Thermus thermophilus HB8)
- Water (18 Da, Ligand)
- V-type atp synthase, subunit k (10 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 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 [ DOI: doi:10.1038/s41467-024-53504-x Pubmed: 39567487 ]
- V-type atp synthase subunit i (72 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit k (10 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 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 [ DOI: doi:10.1038/s41467-024-53504-x Pubmed: 39567487 ]
- V-type atp synthase subunit i (72 kDa, Protein from Thermus thermophilus HB8)
- V-type atp synthase, subunit k (10 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 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 [ DOI: doi:10.1038/s41467-024-53504-x Pubmed: 39567487 ]
- 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)
- V-type atp synthase subunit i (71 kDa, Protein from Thermus thermophilus HB8)
- Vo domain of v/a-atpase from thermus thermophilus. (300 kDa, Complex from Thermus thermophilus HB8)
Cryo-electron tomography of optogenetically-induced lamellipodia
Inaba H, Imasaki T, Aoyama K, Yoshihara S, Takazaki H, Kato T, Goto H, Mitsuoka K, Nitta R, Nakata T
bioRxiv (2024) [ DOI: doi:10.1101/2024.08.13.607852 ]