Intracellular cryo-tomography structure of EBOV nucleocapsid at 8.9 Angstrom
Resolution: 8.9 Å
EM Method: Subtomogram averaging
Fitted PDBs: 8usn
Q-score: 0.251
Watanabe R, Zyla D, Parekh D, Hong C, Jones Y, Schendel SL, Wan W, Castillon G, Saphire EO
Cell (2024) 187 pp. 5587-5603.e19 [ Pubmed: 39293445 DOI: doi:10.1016/j.cell.2024.08.044 ]
- Complex (Virus)
- Outer np with vp35 np-binding peptide (Complex from Ebola virus - Mayinga, Zaire, 1976)
- Rna (5'-r(*ap*ap*ap*ap*ap*a)-3') (1 kDa, RNA from Zaire)
- Vp24 second layer of nucleocapsid (Complex from Ebola virus - Mayinga, Zaire, 1976)
- Membrane-associated protein vp24 (28 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Nucleoprotein (83 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Polymerase cofactor vp35 (37 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Np core with rna (Complex from Homo sapiens)
- Vp35 ctd (Complex from Ebola virus - Mayinga, Zaire, 1976)
Watanabe R, Zyla D, Parekh D, Hong C, Jones Y, Schendel SL, Wan W, Castillon G, Saphire EO
Cell (2024) 187 pp. 5587-5603.e19 [ Pubmed: 39293445 DOI: doi:10.1016/j.cell.2024.08.044 ]
Pre-fusion Measles virus fusion protein complexed with Fab 77
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 8ut2
Q-score: 0.583
Zyla DS, Della Marca R, Niemeyer G, Zipursky G, Stearns K, Leedale C, Sobolik EB, Callaway HM, Hariharan C, Peng W, Parekh D, Marcink TC, Diaz Avalos R, Horvat B, Mathieu C, Snijder J, Greninger AL, Hastie KM, Niewiesk S, Moscona A, Porotto M, Ollmann Saphire E
Science (2024) 384 pp. eadm8693-eadm8693 [ Pubmed: 38935733 DOI: doi:10.1126/science.adm8693 ]
- Mab 77 light chain (25 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
- Antibody 77 fab heavy chain, antibody 77 fab light chain (Complex from Mus musculus)
- Fusion glycoprotein f0 (44 kDa, Protein from Measles morbillivirus)
- Mab 77 heavy chain (52 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fusion glycoprotein f0 (12 kDa, Protein from Measles morbillivirus)
- Structure of measles fusion glycoprotein in complex with fab 77 (Complex)
- Measles virus fusion glycoprotein (Complex from Measles morbillivirus)
Structure of the Measles virus Fusion protein in the post-fusion conformation
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8utf
Q-score: 0.572
Zyla DS, Della Marca R, Niemeyer G, Zipursky G, Stearns K, Leedale C, Sobolik EB, Callaway HM, Hariharan C, Peng W, Parekh D, Marcink TC, Diaz Avalos R, Horvat B, Mathieu C, Snijder J, Greninger AL, Hastie KM, Niewiesk S, Moscona A, Porotto M, Ollmann Saphire E
Science (2024) 384 pp. eadm8693-eadm8693 [ Pubmed: 38935733 DOI: doi:10.1126/science.adm8693 ]
- Fusion glycoprotein f0 (44 kDa, Protein from Measles virus strain Ichinose-B95a)
- Water (18 Da, Ligand)
- Structure of the measles virus fusion protein in the post-fusion conformation (Complex from Measles virus strain Ichinose-B95a)
- Fusion glycoprotein f0 (12 kDa, Protein from Measles virus strain Ichinose-B95a)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Structure of the Measles virus Fusion protein in the pre-fusion conformation
Resolution: 2.11 Å
EM Method: Single-particle
Fitted PDBs: 8uup
Q-score: 0.637
Zyla DS, Della Marca R, Niemeyer G, Zipursky G, Stearns K, Leedale C, Sobolik EB, Callaway HM, Hariharan C, Peng W, Parekh D, Marcink TC, Diaz Avalos R, Horvat B, Mathieu C, Snijder J, Greninger AL, Hastie KM, Niewiesk S, Moscona A, Porotto M, Ollmann Saphire E
Science (2024) 384 pp. eadm8693-eadm8693 [ Pubmed: 38935733 DOI: doi:10.1126/science.adm8693 ]
- Fusion glycoprotein f0 (44 kDa, Protein from Measles virus strain Ichinose-B95a)
- Water (18 Da, Ligand)
- Structure of the measles virus fusion protein in the pre-fusion conformation (Complex from Measles virus strain Ichinose-B95a)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fusion glycoprotein f0 (12 kDa, Protein from Measles virus strain Ichinose-B95a)
Resolution: 2.34 Å
EM Method: Single-particle
Fitted PDBs: 8uuq
Q-score: 0.663
Zyla DS, Della Marca R, Niemeyer G, Zipursky G, Stearns K, Leedale C, Sobolik EB, Callaway HM, Hariharan C, Peng W, Parekh D, Marcink TC, Diaz Avalos R, Horvat B, Mathieu C, Snijder J, Greninger AL, Hastie KM, Niewiesk S, Moscona A, Porotto M, Ollmann Saphire E
Science (2024) 384 pp. eadm8693-eadm8693 [ Pubmed: 38935733 DOI: doi:10.1126/science.adm8693 ]
- Fusion glycoprotein f0 (44 kDa, Protein from Measles virus strain Ichinose-B95a)
- Water (18 Da, Ligand)
- Structure of the measles virus fusion protein in the pre-fusion conformation with bound [fip-hrc]2-peg11 (Complex from Measles virus strain Ichinose-B95a)
- Fusion glycoprotein f0 (12 kDa, Protein from Measles virus strain Ichinose-B95a)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- [fip-hrc]2-peg11 (503 Da, Protein from synthetic construct)
Fab 77-stabilized MeV F ectodomain fragment
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 9at8
Q-score: 0.444
Zyla DS, Della Marca R, Niemeyer G, Zipursky G, Stearns K, Leedale C, Sobolik EB, Callaway HM, Hariharan C, Peng W, Parekh D, Marcink TC, Diaz Avalos R, Horvat B, Mathieu C, Snijder J, Greninger AL, Hastie KM, Niewiesk S, Moscona A, Porotto M, Ollmann Saphire E
Science (2024) 384 pp. eadm8693-eadm8693 [ Pubmed: 38935733 DOI: doi:10.1126/science.adm8693 ]
- Antibody 77 fab heavy chain, antibody 77 fab light chain (Complex from Mus musculus)
- Mab 77 light chain (25 kDa, Protein from Homo sapiens)
- Fab 77-stabilized mev f ectodomain fragment (43 kDa, Complex)
- Fusion glycoprotein f0 (57 kDa, Protein from Measles virus strain Ichinose-B95a)
- Measles virus fusion glycoprotein (Complex from Measles virus strain Ichinose-B95a)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Mab 77 heavy chain (52 kDa, Protein from Homo sapiens)
Structure of EBOV GP lacking the mucin-like domain with 2.1.1D5 scFv and 6D6 scFv bound
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8dpl
Q-score: 0.536
Yu X, Hastie KM, Davis CW, Avalos RD, Williams D, Parekh D, Hui S, Mann C, Hariharan C, Takada A, Ahmed R, Saphire EO
Cell Rep (2023) 42 pp. 113366-113366 [ Pubmed: 37938974 DOI: doi:10.1016/j.celrep.2023.113366 ]
- Structure of ebov gp in complex with 2.1.1d5 scfv and 6d6 scfv (Complex from Ebola virus - Mayinga, Zaire, 1976)
- 2.1.1d5 heavy chain variable domain (13 kDa, Protein from Homo sapiens)
- 2.1.1d5 light chain variable domain (11 kDa, Protein from Homo sapiens)
- Glycoprotein gp2 (15 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Glycoprotein gp1 (31 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- 6d6 single-chain variable fragment (25 kDa, Protein from Mus musculus)
Structure of EBOV GP lacking the mucin-like domain with 9.20.1A2 Fab and 6D6 scFv bound
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8dpm
Q-score: 0.505
Yu X, Hastie KM, Davis CW, Avalos RD, Williams D, Parekh D, Hui S, Mann C, Hariharan C, Takada A, Ahmed R, Saphire EO
Cell Rep (2023) 42 pp. 113366-113366 [ Pubmed: 37938974 DOI: doi:10.1016/j.celrep.2023.113366 ]
- Complex of ebola virus glycoprotein trimer with 1a2 antibody fab and 6d6 antibody scfv (Complex from Ebola virus - Mayinga, Zaire, 1976)
- Glycoprotein gp2 (15 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Antibody 6d6 scfv (25 kDa, Protein from Mus musculus)
- Antibody 9.20.1a2 fab light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody 9.20.1a2 fab (Complex from Homo sapiens)
- Antibody 9.20.1a2 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Glycoprotein gp1 (31 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
Structure of the Inmazeb cocktail and resistance to escape against Ebola virus
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7tn9
Q-score: 0.475
Rayaprolu V, Fulton BO, Rafique A, Arturo E, Williams D, Hariharan C, Callaway H, Parvate A, Schendel SL, Parekh D, Hui S, Shaffer K, Pascal KE, Wloga E, Giordano S, Negron N, Ni M, Copin R, Atwal GS, Franklin M, Boytz RM, Donahue C, Davey R, Baum A, Kyratsous CA, Saphire EO
Cell Host Microbe (2023) 31 pp. 260- [ DOI: doi:10.1016/j.chom.2023.01.002 Pubmed: 36708708 ]
- Inmazeb therapeutic cocktail (Complex)
- Gp2 (15 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Regn3471 light chain (24 kDa, Protein from Mus musculus)
- Regn3470 heavy chain (23 kDa, Protein from Mus musculus)
- Envelope glycoprotein, shed gp (Complex from Mus musculus)
- Regn3479 light chain (23 kDa, Protein from Mus musculus)
- Regn3470 light chain (23 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Regn3471 heavy chain (23 kDa, Protein from Mus musculus)
- Envelope glycoprotein (35 kDa, Protein from Ebola virus - Mayinga, Zaire, 1976)
- Regn3479 heavy chain (22 kDa, Protein from Mus musculus)
- Regn3471 heavy chain, regn3479 light chain, regn3471 light chain, regn3479 heavy chain, regn3470 heavy chain, regn3470 light chain (Complex from Ebola virus - Mayinga, Zaire, 1976)