Cryo-EM structure of the J-K-St region of EMCV IRES in complex with eIF4G-HEAT1 and eIF4A
Resolution: 3.76 Å
EM Method: Single-particle
Fitted PDBs: 8huj
Q-score: 0.406
Imai S, Suzuki H, Fujiyoshi Y, Shimada I
Nat Commun (2023) 14 pp. 4977-4977 [ DOI: doi:10.1038/s41467-023-40582-6 Pubmed: 37640715 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Eukaryotic initiation factor 4a-i (48 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 4 gamma 1 (31 kDa, Protein from Homo sapiens)
- Ires rna (j-k-st) (34 kDa, RNA from Encephalomyocarditis virus)
- Ternary complex of the j-k-st region of emcv ires with eif4a and eif4g-heat1 (Complex from Homo sapiens)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8j7r
Q-score: 0.407
Imai S, Suzuki H, Fujiyoshi Y, Shimada I
Nat Commun (2023) 14 pp. 4977-4977 [ DOI: doi:10.1038/s41467-023-40582-6 Pubmed: 37640715 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Eukaryotic translation initiation factor 4 gamma 1 (31 kDa, Protein from Homo sapiens)
- Ires rna (j-k-st) (34 kDa, RNA from Encephalomyocarditis virus)
- Ternary complex of the j-k-st region of emcv ires with eif4a and eif4g-heat1 (Complex from Homo sapiens)
Cryo-EM structure of the N-terminal deletion mutant of human pannexin-1 in a nanodisc
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7wsv
Q-score: 0.325
Kuzuya M, Hirano H, Hayashida K, Watanabe M, Kobayashi K, Terada T, Mahmood MI, Tama F, Tani K, Fujiyoshi Y, Oshima A
Sci Signal (2022) 15 pp. eabg6941-eabg6941 [ Pubmed: 35133866 DOI: doi:10.1126/scisignal.abg6941 ]
Cryo-EM structure of human pannexin-1 in a nanodisc
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7f8j
Q-score: 0.48
Kuzuya M, Hirano H, Hayashida K, Watanabe M, Kobayashi K, Terada T, Mahmood MI, Tama F, Tani K, Fujiyoshi Y, Oshima A
Sci Signal (2022) 15 pp. eabg6941-eabg6941 [ Pubmed: 35133866 DOI: doi:10.1126/scisignal.abg6941 ]
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Heptamar of human pannexin-1 channel in a nanodisc (Complex from Homo sapiens)
- Pannexin-1 (48 kDa, Protein from Homo sapiens)
Human pannexin-1 showing a conformational change in the N-terminal domain and blocked pore
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7f8n
Q-score: 0.488
Kuzuya M, Hirano H, Hayashida K, Watanabe M, Kobayashi K, Terada T, Mahmood MI, Tama F, Tani K, Fujiyoshi Y, Oshima A
Sci Signal (2022) 15 pp. eabg6941-eabg6941 [ Pubmed: 35133866 DOI: doi:10.1126/scisignal.abg6941 ]
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Human pannexin-1 (Complex from Homo sapiens)
- Pannexin-1 (48 kDa, Protein from Homo sapiens)
Cryo-EM structure of the C-terminal deletion mutant of human PANX1 in a nanodisc
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7f8o
Q-score: 0.444
Kuzuya M, Hirano H, Hayashida K, Watanabe M, Kobayashi K, Terada T, Mahmood MI, Tama F, Tani K, Fujiyoshi Y, Oshima A
Sci Signal (2022) 15 pp. eabg6941-eabg6941 [ Pubmed: 35133866 DOI: doi:10.1126/scisignal.abg6941 ]
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Heptamar of human pannexin-1 channel in a nanodisc (Complex from Homo sapiens)
- Pannexin-1 (48 kDa, Protein from Homo sapiens)
Cryo-EM structure of a human ATP11C-CDC50A flippase in E1-AMPPCP state
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7bsp
Q-score: 0.477
Nakanishi H, Nishizawa T, Segawa K, Nureki O, Fujiyoshi Y, Nagata S, Abe K
Cell Rep (2020) 32 pp. 108208-108208 [ DOI: doi:10.1016/j.celrep.2020.108208 Pubmed: 32997992 ]
- Human atp11c-cdc50a flippase (180 kDa, Complex from Homo sapiens)
- Atp11c (124 kDa, Protein from Homo sapiens)
- Cdc50a (40 kDa, Protein from Homo sapiens)
- Phosphomethylphosphonic acid adenylate ester (505 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of a human ATP11C-CDC50A flippase in E1AlF-ADP state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7bsq
Q-score: 0.567
Nakanishi H, Nishizawa T, Segawa K, Nureki O, Fujiyoshi Y, Nagata S, Abe K
Cell Rep (2020) 32 pp. 108208-108208 [ DOI: doi:10.1016/j.celrep.2020.108208 Pubmed: 32997992 ]
- Magnesium ion (24 Da, Ligand)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Human atp11c-cdc50a flippase (180 kDa, Complex from Homo sapiens)
- Atp11c (124 kDa, Protein from Homo sapiens)
- Cdc50a (40 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of a human ATP11C-CDC50A flippase in E1AlF state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7bss
Q-score: 0.539
Nakanishi H, Nishizawa T, Segawa K, Nureki O, Fujiyoshi Y, Nagata S, Abe K
Cell Rep (2020) 32 pp. 108208-108208 [ DOI: doi:10.1016/j.celrep.2020.108208 Pubmed: 32997992 ]
- Magnesium ion (24 Da, Ligand)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Alpha-d-mannopyranose (180 Da, Ligand)
- Human atp11c-cdc50a flippase (180 kDa, Complex from Homo sapiens)
- Atp11c (124 kDa, Protein from Homo sapiens)
- Cdc50a (40 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of a human ATP11C-CDC50A flippase in PtdSer-bound E2BeF state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7bsu
Q-score: 0.572
Nakanishi H, Nishizawa T, Segawa K, Nureki O, Fujiyoshi Y, Nagata S, Abe K
Cell Rep (2020) 32 pp. 108208-108208 [ DOI: doi:10.1016/j.celrep.2020.108208 Pubmed: 32997992 ]
- Magnesium ion (24 Da, Ligand)
- Cell cycle control protein 50a (40 kDa, Protein from Homo sapiens)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Human atp11c-cdc50a flippase (180 kDa, Complex from Homo sapiens)
- Atp11c (124 kDa, Protein from Homo sapiens)
- 1-deoxy-alpha-d-mannopyranose (164 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)