Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
- Major vault protein (99 kDa, Protein from Homo sapiens)
- Oligomerized human mvp (7 MDa, Complex from Homo sapiens)
Human Vault Cage in complex with NAD+
Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
Human Vault Cage in complex with PARP4
Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
- Binary complex of human parp4 bound to oligomerized human mvp (12 MDa, Complex from Homo sapiens)
- Major vault protein (99 kDa, Protein from Homo sapiens)
- Protein mono-adp-ribosyltransferase parp4 (192 kDa, Protein from Homo sapiens)
Human Vault Cage in complex with PARP4 and NAD+
Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
- Ternary complex of nad+ and human parp4 bound to oligomerized human mvp (12 MDa, Complex from Homo sapiens)
- Protein mono-adp-ribosyltransferase parp4 (192 kDa, Protein from Homo sapiens)
- Major vault protein (99 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
Human Vault Cage in the presence of ADP
Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
- Oligomerized human mvp in the presence of adp (7 MDa, Complex from Homo sapiens)
- Major vault protein (Protein from Homo sapiens)
Human Vault Cage in complex with the MINT domain of PARP4
Lodwick JE, Shen R, Erramilli S, Xie Y, Roganowicz K, Kossiakoff AA, Zhao M
bioRxiv (2024) [ Pubmed: 38979142 DOI: doi:10.1101/2024.06.27.601040 ]
Structure of yeast Ubr1 in complex with Ubc2 and N-degron
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 7mex
Q-score: 0.45
Pan M, Zheng Q, Wang T, Liang L, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y, Liu L, Zhao M
Nature (2021) 600 pp. 334-338 [ DOI: doi:10.1038/s41586-021-04097-8 Pubmed: 34789879 ]
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase ubr1 (225 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin-conjugating enzyme e2 2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- N-degron (4 kDa, Protein from Saccharomyces cerevisiae S288C)
- Yeast ubr1 in complex with ubc2 and n-degron (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Structure of yeast Ubr1 in complex with Ubc2 and monoubiquitinated N-degron
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 7mey
Q-score: 0.407
Pan M, Zheng Q, Wang T, Liang L, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y, Liu L, Zhao M
Nature (2021) 600 pp. 334-338 [ Pubmed: 34789879 DOI: doi:10.1038/s41586-021-04097-8 ]
- Zinc ion (65 Da, Ligand)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Monoubiquitinated n-degron (4 kDa, Protein from Saccharomyces cerevisiae S288C)
- Yeast ubr1 in complex with ubc2 and monoubiquitinated n-degron (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase ubr1 (225 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin-conjugating enzyme e2 2 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 2-(ethylamino)ethane-1-thiol (105 Da, Ligand)
Cryo-EM structure of human p97 in complex with NMS-873 in the presence of ATP, Npl4/Ufd1, and Ub6
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7lmy
Q-score: 0.512
Pan M, Yu Y, Ai H, Zheng Q, Xie Y, Liu L, Zhao M
Nat Struct Mol Biol (2021) 28 pp. 614-625 [ DOI: doi:10.1038/s41594-021-00617-2 Pubmed: 34262183 ]
- Magnesium ion (24 Da, Ligand)
- Human p97 in complex with nms-873 in the presence of atp, npl4/ufd1, and k48-linked ub6 (Complex from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Transitional endoplasmic reticulum atpase (89 kDa, Protein from Homo sapiens)
- 3-[3-cyclopentylsulfanyl-5-[[3-methyl-4-(4-methylsulfonylphenyl)phenoxy]methyl]-1,2,4-triazol-4-yl]pyridine (520 Da, Ligand)