Cryo-EM structure of human integrin alpha-E beta-7
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8zjf
Q-score: 0.415
Akasaka H, Sato D, Shihoya W, Nureki O, Kise Y
Biochem Biophys Res Commun (2024) 721 pp. 150121-150121 [ DOI: doi:10.1016/j.bbrc.2024.150121 Pubmed: 38781659 ]
- Integrin alpha-e beta-7 (Complex from Homo sapiens)
- Integrin beta-7 (90 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Integrin alpha-e (132 kDa, Protein from Homo sapiens)
Cryo-EM structure of full-length ERGIC-53 in complex with MCFD2
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 [ DOI: 10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
Image sets:
Human GPR34 -Gi complex bound to S3E-LysoPS
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8xbe
Q-score: 0.445
Izume T, Kawahara R, Uwamizu A, Chen L, Yaginuma S, Omi J, Kawana H, Hou F, Sano FK, Tanaka T, Kobayashi K, Okamoto HH, Kise Y, Ohwada T, Aoki J, Shihoya W, Nureki O
Nat Commun (2024) 15 pp. 902-902 [ DOI: doi:10.1038/s41467-024-45046-z Pubmed: 38326347 ]
- Human gpr34-gi complex bound to s3e-lysops (Complex)
- Scfv16 (Complex from Mus musculus)
- Probable g-protein coupled receptor 34 (45 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (Complex from Rattus norvegicus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus norvegicus)
- Probable g-protein coupled receptor 34 (Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (Complex from Homo sapiens)
- (2~{s})-2-azanyl-3-[[(2~{r})-1-ethoxy-3-[(~{z})-octadec-9-enoyl]oxy-propan-2-yl]oxy-oxidanyl-phosphoryl]oxy-propanoic acid (551 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (Complex from Bos taurus)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Human GPR34 -Gi complex bound to S3E-LysoPS, receptor focused
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8xbg
Q-score: 0.42
Izume T, Kawahara R, Uwamizu A, Chen L, Yaginuma S, Omi J, Kawana H, Hou F, Sano FK, Tanaka T, Kobayashi K, Okamoto HH, Kise Y, Ohwada T, Aoki J, Shihoya W, Nureki O
Nat Commun (2024) 15 pp. 902-902 [ DOI: doi:10.1038/s41467-024-45046-z Pubmed: 38326347 ]
- Human gpr34-gi complex bound to s3e-lysops, receptor focused (Complex from Homo sapiens)
- (2~{s})-2-azanyl-3-[[(2~{r})-1-ethoxy-3-[(~{z})-octadec-9-enoyl]oxy-propan-2-yl]oxy-oxidanyl-phosphoryl]oxy-propanoic acid (551 Da, Ligand)
- Probable g-protein coupled receptor 34 (45 kDa, Protein from Homo sapiens)
Cryo-EM structure of ERGIC-53 H34 deletion mutant in complex with MCFD2
Watanabe S, Kise Y, Yonezawa K, Inoue M, Shimizu N, Nureki O, Inaba K
Nat Commun (2024) 15 [ DOI: 10.1038/s41467-024-46747-1 Pubmed: 38493152 ]
Image sets:
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 ]
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- 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)
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 ]
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)
- 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)
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 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 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 [ Pubmed: 38493152 DOI: doi:10.1038/s41467-024-46747-1 ]
- Ergic-53-mcfd2 complex (Complex from Homo sapiens)
- Protein ergic-53 (58 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Multiple coagulation factor deficiency protein 2 (13 kDa, Protein from Homo sapiens)