NTD focused cryo-EM map of p97/VCP in ADP.Pi state
Shein M, Hitzenberger M, Cheng TC, Rout SR, Leitl KD, Sato Y, Zacharias M, Sakata E, Schutz AK
Nat Chem (2024) 16 pp. 363-372 [ DOI: doi:10.1038/s41557-024-01440-0 Pubmed: 38326645 ]
- P97/vcp (Protein from Homo sapiens)
- P97/vcp (Complex from Homo sapiens)
Full composite cryo-EM map of p97/VCP in ADP.Pi state
Resolution: 2.61 Å
EM Method: Single-particle
Fitted PDBs: 8ooi
Q-score: 0.522
Shein M, Hitzenberger M, Cheng TC, Rout SR, Leitl KD, Sato Y, Zacharias M, Sakata E, Schutz AK
Nat Chem (2024) 16 pp. 363-372 [ DOI: doi:10.1038/s41557-024-01440-0 Pubmed: 38326645 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Transitional endoplasmic reticulum atpase (89 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- P97/vcp (Complex from Homo sapiens)
- Phosphate ion (94 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
D1-D2 ring focused cryo-EM map of p97/VCP in ADP.Pi state
Shein M, Hitzenberger M, Cheng TC, Rout SR, Leitl KD, Sato Y, Zacharias M, Sakata E, Schutz AK
Nat Chem (2024) 16 pp. 363-372 [ DOI: doi:10.1038/s41557-024-01440-0 Pubmed: 38326645 ]
Consensus cryo-EM map of p97/VCP in ADP.Pi state
Shein M, Hitzenberger M, Cheng TC, Rout SR, Leitl KD, Sato Y, Zacharias M, Sakata E, Schutz AK
Nat Chem (2024) 16 pp. 363-372 [ DOI: doi:10.1038/s41557-024-01440-0 Pubmed: 38326645 ]
Cryo-EM structure of human NTCP-myr-preS1-YN9048Fab complex
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8hrx
Q-score: 0.523
Asami J, Park JH, Nomura Y, Kobayashi C, Mifune J, Ishimoto N, Uemura T, Liu K, Sato Y, Zhang Z, Muramatsu M, Wakita T, Drew D, Iwata S, Shimizu T, Watashi K, Park SY, Nomura N, Ohto U
Nat Struct Mol Biol (2024) 31 pp. 447-454 [ Pubmed: 38233573 DOI: doi:10.1038/s41594-023-01191-5 ]
- Ntcp-myr-pres1-yn9048fab (Complex from Homo sapiens)
- Fab light chain from antibody igg clone number yn9048 (23 kDa, Protein from Ondatra zibethicus)
- Sodium/bile acid cotransporter (38 kDa, Protein from Homo sapiens)
- Fab heavy chain from antibody igg clone number yn9048 (26 kDa, Protein from Ondatra zibethicus)
- Pres1 protein (fragment) (6 kDa, Protein from Hepatitis B virus)
Cryo-EM structure of human NTCP-myr-preS1-YN9016Fab complex
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8hry
Q-score: 0.523
Asami J, Park JH, Nomura Y, Kobayashi C, Mifune J, Ishimoto N, Uemura T, Liu K, Sato Y, Zhang Z, Muramatsu M, Wakita T, Drew D, Iwata S, Shimizu T, Watashi K, Park SY, Nomura N, Ohto U
Nat Struct Mol Biol (2024) 31 pp. 447-454 [ Pubmed: 38233573 DOI: doi:10.1038/s41594-023-01191-5 ]
- Fab heavy chain from antibody igg clone number yn9016 (25 kDa, Protein from Ondatra zibethicus)
- Ntcp-myr-pres1-yn9016fab (Complex from Homo sapiens)
- Fab light chain from antibody igg clone number yn9016 (23 kDa, Protein from Ondatra zibethicus)
- Large s protein (fragment) (6 kDa, Protein from Hepatitis B virus)
- Sodium/bile acid cotransporter (38 kDa, Protein from Homo sapiens)
Cryo-EM structures of the translocational binary toxin complex CDTa-bound CDTb-pore
Kawamoto A, Yamada T, Yoshida T, Sato Y, Kato T, Tsuge H
Nat Commun (2022) 13 [ Pubmed: 36253419 DOI: 10.1038/s41467-022-33888-4 ]
Image sets:
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 7vnj
Q-score: 0.536
Kawamoto A, Yamada T, Yoshida T, Sato Y, Kato T, Tsuge H
Nat Commun (2022) 13 pp. 6119-6119 [ Pubmed: 36253419 DOI: doi:10.1038/s41467-022-33888-4 ]
- Cdta-bound cdtb-pore (long) (Complex from Clostridioides difficile)
- Adp-ribosylating binary toxin binding subunit cdtb (75 kDa, Protein from Clostridioides difficile)
- Cdta (Complex)
- Cdtb (Complex from Clostridioides difficile)
- Calcium ion (40 Da, Ligand)
- Adp-ribosyltransferase enzymatic component (49 kDa, Protein from Clostridioides difficile)
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 7vnn
Q-score: 0.529
Kawamoto A, Yamada T, Yoshida T, Sato Y, Kato T, Tsuge H
Nat Commun (2022) 13 pp. 6119-6119 [ Pubmed: 36253419 DOI: doi:10.1038/s41467-022-33888-4 ]
- Cdta-bound cdtb-pore (long) (Complex from Clostridioides difficile)
- Adp-ribosylating binary toxin binding subunit cdtb (75 kDa, Protein from Clostridioides difficile)
- Cdtb-pore (Complex from Clostridioides difficile)
- Cdta (Complex)
- Cdta (49 kDa, Protein from Clostridioides difficile)
- Calcium ion (40 Da, Ligand)
Kawamoto A, Yamada T, Yoshida T, Sato Y, Kato T, Tsuge H
Nat Commun (2022) 13 pp. 6119-6119 [ Pubmed: 36253419 DOI: doi:10.1038/s41467-022-33888-4 ]