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)
Cryo-EM structure of the head region of full-length ERGIC-53 with MCFD2 (form A)
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8jp4
Q-score: 0.496
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structures of the head region of full-length ERGIC-53 with MCFD2 (form B)
Resolution: 2.59 Å
EM Method: Single-particle
Fitted PDBs: 8jp5
Q-score: 0.476
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structures of the head region of full-length ERGIC-53 with MCFD2 (Substate A)
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 8jp6
Q-score: 0.461
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of the head region of full-length ERGIC-53 with MCFD2 (Substate B)
Resolution: 3.51 Å
EM Method: Single-particle
Fitted PDBs: 8jp7
Q-score: 0.412
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of the head region of full-length ERGIC-53 with MCFD2 (Substate C)
Resolution: 3.39 Å
EM Method: Single-particle
Fitted PDBs: 8jp8
Q-score: 0.413
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of the head region of full-length ERGIC-53 with MCFD2 (Substate D)
Resolution: 3.37 Å
EM Method: Single-particle
Fitted PDBs: 8jp9
Q-score: 0.422
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Cryo-EM structure of full-length ERGIC-53 with MCFD2
Resolution: 6.76 Å
EM Method: Single-particle
Fitted PDBs: 8jpg
Q-score: 0.143
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ DOI: doi:10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8j7u
Q-score: 0.412
Bui HB, Watanabe S, Nomura N, Liu K, Uemura T, Inoue M, Tsutsumi A, Fujita H, Kinoshita K, Kato Y, Iwata S, Kikkawa M, Inaba K
Nat Commun (2023) 14 pp. 4770-4770 [ Pubmed: 37553324 DOI: doi:10.1038/s41467-023-40521-5 ]
- Zinc ion (65 Da, Ligand)
- Light chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
- Human znt7-fab complex (Complex from Homo sapiens)
- Zinc transporter 7 (43 kDa, Protein from Homo sapiens)
- Heavy chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 8j7w
Q-score: 0.496
Bui HB, Watanabe S, Nomura N, Liu K, Uemura T, Inoue M, Tsutsumi A, Fujita H, Kinoshita K, Kato Y, Iwata S, Kikkawa M, Inaba K
Nat Commun (2023) 14 pp. 4770-4770 [ Pubmed: 37553324 DOI: doi:10.1038/s41467-023-40521-5 ]
- Zinc ion (65 Da, Ligand)
- Light chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
- Human znt7-fab complex (Complex from Homo sapiens)
- Zinc transporter 7 (43 kDa, Protein from Homo sapiens)
- Heavy chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)