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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Calcium ion (40 Da, Ligand)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
cryoEM structure of ERGIC-53 deltaH34 mutant with MCFD2
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 pp. 2404-2404 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Mcfd2 (Macromolecule from Homo sapiens)
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Ergic-53 (Macromolecule from Homo sapiens)
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8j7t
Q-score: 0.564
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 [ DOI: doi:10.1038/s41467-023-40521-5 Pubmed: 37553324 ]
- Zinc transporter 7 (43 kDa, Protein from Homo sapiens)
- Human znt7-fab complex (Complex from Homo sapiens)
- Light chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
- Heavy chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
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 [ DOI: doi:10.1038/s41467-023-40521-5 Pubmed: 37553324 ]
- Light chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
- Zinc transporter 7 (43 kDa, Protein from Homo sapiens)
- Heavy chain of yn7114-08 fab (24 kDa, Protein from Mus musculus)
- Human znt7-fab complex (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)