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 aspt (58 kDa, Cellular component from Tetragenococcus halophilus)
- Aspartate/alanine antiporter (57 kDa, Protein from Tetragenococcus halophilus)
- Aspartic acid (133 Da, Ligand)
CryoEM structure of SPCA1a in E1-Mn-AMPPCP state subclass 1
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 7yaj
Q-score: 0.344
Chen Z, Watanabe S, Hashida H, Inoue M, Daigaku Y, Kikkawa M, Inaba K
Sci Adv (2023) 9 pp. eadd9742-eadd9742 [ DOI: doi:10.1126/sciadv.add9742 Pubmed: 36867705 ]
- Calcium-transporting atpase type 2c member 1 (103 kDa, Protein from Homo sapiens)
- Spca1a (Complex from Homo sapiens)
- A complex of spca1a and megabody in e1-mn-amppcp state, subclass1 (Complex)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- Megabody (Complex from Vicugna pacos)
- Manganese (ii) ion (54 Da, Ligand)
- Nanobody head piece of megabody (13 kDa, Protein from Vicugna pacos)
CryoEM structure of SPCA1a in E2P state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7yam
Q-score: 0.503
Chen Z, Watanabe S, Hashida H, Inoue M, Daigaku Y, Kikkawa M, Inaba K
Sci Adv (2023) 9 pp. eadd9742-eadd9742 [ DOI: doi:10.1126/sciadv.add9742 Pubmed: 36867705 ]
- Calcium-transporting atpase type 2c member 1 (103 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Spca1a in e2p state (Complex from Homo sapiens)
- Beryllium trifluoride ion (66 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7w7t
Q-score: 0.431
Zhang Y, Kobayashi C, Cai X, Watanabe S, Tsutsumi A, Kikkawa M, Sugita Y, Inaba K
Cell Rep (2022) 41 pp. 111760-111760 [ DOI: doi:10.1016/j.celrep.2022.111760 Pubmed: 36476867 ]
- Serca2b with ca (110 MDa, Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (114 kDa, Protein from Homo sapiens)
The 'Ca2+-unbound' BeF3- of SERCA2b
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7w7u
Q-score: 0.52
Zhang Y, Kobayashi C, Cai X, Watanabe S, Tsutsumi A, Kikkawa M, Sugita Y, Inaba K
Cell Rep (2022) 41 pp. 111760-111760 [ DOI: doi:10.1016/j.celrep.2022.111760 Pubmed: 36476867 ]
- Serca2b with ca (110 MDa, Complex from Homo sapiens)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (114 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7w7v
Q-score: 0.473
Zhang Y, Kobayashi C, Cai X, Watanabe S, Tsutsumi A, Kikkawa M, Sugita Y, Inaba K
Cell Rep (2022) 41 pp. 111760-111760 [ DOI: doi:10.1016/j.celrep.2022.111760 Pubmed: 36476867 ]
- Serca2b with ca (110 MDa, Complex from Homo sapiens)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (114 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7w7w
Q-score: 0.482
Zhang Y, Kobayashi C, Cai X, Watanabe S, Tsutsumi A, Kikkawa M, Sugita Y, Inaba K
Cell Rep (2022) 41 pp. 111760-111760 [ DOI: doi:10.1016/j.celrep.2022.111760 Pubmed: 36476867 ]
- Serca2b with ca (110 MDa, Complex from Homo sapiens)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (114 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Tetrafluoroaluminate ion (102 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7e7s
Q-score: 0.472
Zhang Y, Watanabe S, Tsutsumi A, Kadokura H, Kikkawa M, Inaba K
EMBO J (2021) 40 pp. e108482-e108482 [ DOI: doi:10.15252/embj.2021108482 Pubmed: 34459010 ]
- Serca2b with ca (110 MDa, Complex from Homo sapiens)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (114 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6lle
Q-score: 0.576
Zhang Y, Inoue M, Tsutsumi A, Watanabe S, Nishizawa T, Nagata K, Kikkawa M, Inaba K
Sci Adv (2020) 6 pp. eabb0147-eabb0147 [ Pubmed: 32851169 DOI: doi:10.1126/sciadv.abb0147 ]
- Serca2b with acp (110 MDa, Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (117 kDa, Protein from Homo sapiens)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6lly
Q-score: 0.561
Zhang Y, Inoue M, Tsutsumi A, Watanabe S, Nishizawa T, Nagata K, Kikkawa M, Inaba K
Sci Adv (2020) 6 pp. eabb0147-eabb0147 [ Pubmed: 32851169 DOI: doi:10.1126/sciadv.abb0147 ]
- Beryllium trifluoride ion (66 Da, Ligand)
- Sarcoplasmic/endoplasmic reticulum calcium atpase 2 (117 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Serca2b with bef3 (110 MDa, Complex from Homo sapiens)