SARS-CoV-2 BA.1 RBD with UT28-RD
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 8k5g
Q-score: 0.522
Ozawa T, Ikeda Y, Chen L, Suzuki R, Hoshino A, Noguchi A, Kita S, Anraku Y, Igarashi E, Saga Y, Inasaki N, Taminishi S, Sasaki J, Kirita Y, Fukuhara H, Maenaka K, Hashiguchi T, Fukuhara T, Hirabayashi K, Tani H, Kishi H, Niimi H
Structure (2024) 32 pp. 263-272.e7 [ DOI: doi:10.1016/j.str.2023.12.013 Pubmed: 38228146 ]
- Ut28k-rd fab heavy chain (27 kDa, Protein from Homo sapiens)
- Spike protein s1 (25 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ut28k-rd fab (Complex from Homo sapiens)
- Sars-cov-2 ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ut28k-rd fab light chain (25 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.1 spike protein with ut28k-rd complex (50 kDa, Complex)
SARS-CoV-2 BA.1 spike with UT28-RD
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 8k5h
Q-score: 0.497
Ozawa T, Ikeda Y, Chen L, Suzuki R, Hoshino A, Noguchi A, Kita S, Anraku Y, Igarashi E, Saga Y, Inasaki N, Taminishi S, Sasaki J, Kirita Y, Fukuhara H, Maenaka K, Hashiguchi T, Fukuhara T, Hirabayashi K, Tani H, Kishi H, Niimi H
Structure (2024) 32 pp. 263-272.e7 [ DOI: doi:10.1016/j.str.2023.12.013 Pubmed: 38228146 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ut28k-rd fab light chain (25 kDa, Protein from Homo sapiens)
- Ut28k-rd fab (Complex from Homo sapiens)
- Sars-cov-2 ba.1 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 ba.1 spike protein with ut28k-rd complex (50 kDa, Complex)
- Ut28k-rd fab heavy chain (27 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-11
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8hgl
Q-score: 0.368
Moriyama S, Anraku Y, Taminishi S, Adachi Y, Kuroda D, Kita S, Higuchi Y, Kirita Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y
Nat Commun (2023) 14 pp. 4198-4198 [ DOI: doi:10.1038/s41467-023-39890-8 Pubmed: 37452031 ]
- Niv-11 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Niv-11 fab light chain (23 kDa, Protein from Homo sapiens)
- Niv-11 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein in complex with niv-11 (570 kDa, Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-11 focused on RBD and NIV-11 interface
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8hgm
Q-score: 0.459
Moriyama S, Anraku Y, Taminishi S, Adachi Y, Kuroda D, Kita S, Higuchi Y, Kirita Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y
Nat Commun (2023) 14 pp. 4198-4198 [ DOI: doi:10.1038/s41467-023-39890-8 Pubmed: 37452031 ]
- Niv-11 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Niv-11 fab light chain (23 kDa, Protein from Homo sapiens)
- Niv-11 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein in complex with niv-11 (570 kDa, Complex)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-8 focused on RBD and NIV-8 interface
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7yh6
Q-score: 0.519
Moriyama S, Anraku Y, Taminishi S, Adachi Y, Kuroda D, Kita S, Higuchi Y, Kirita Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y
Nat Commun (2023) 14 pp. 4198-4198 [ DOI: doi:10.1038/s41467-023-39890-8 Pubmed: 37452031 ]
- Niv-8 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein in complex with niv-8 (570 kDa, Complex)
- Niv-8 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike protein s1 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Niv-8 fab heavy chain (13 kDa, Protein from Homo sapiens)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-8 (state 2)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7yh7
Q-score: 0.394
Moriyama S, Anraku Y, Taminishi S, Adachi Y, Kuroda D, Kita S, Higuchi Y, Kirita Y, Kotaki R, Tonouchi K, Yumoto K, Suzuki T, Someya T, Fukuhara H, Kuroda Y, Yamamoto T, Onodera T, Fukushi S, Maeda K, Nakamura-Uchiyama F, Hashiguchi T, Hoshino A, Maenaka K, Takahashi Y
Nat Commun (2023) 14 pp. 4198-4198 [ DOI: doi:10.1038/s41467-023-39890-8 Pubmed: 37452031 ]
- Niv-8 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-8 (570 kDa, Complex)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (132 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Niv-8 fab light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Niv-8 fab heavy chain (13 kDa, Protein from Homo sapiens)