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 light chain (25 kDa, Protein from Homo sapiens)
- 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)
- 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)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ut28k-rd fab heavy chain (27 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.1 spike protein with ut28k-rd complex (50 kDa, Complex)
- Ut28k-rd fab light chain (25 kDa, Protein from Homo sapiens)
- Spike glycoprotein (133 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)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Niv-11 fab (50 kDa, Complex from Homo sapiens)
- Niv-11 fab light chain (23 kDa, Protein from Homo sapiens)
- Niv-11 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-11 (570 kDa, Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-11 fab (50 kDa, Complex from Homo sapiens)
- Niv-11 fab light chain (23 kDa, Protein from Homo sapiens)
- Niv-11 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-11 (570 kDa, Complex)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-8 fab light chain (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-8 (570 kDa, Complex)
- Niv-8 fab (50 kDa, Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Niv-8 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike protein s1 (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-8 (state 1)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Sars-cov-2 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein in complex with niv-8 (570 kDa, Complex)
- Niv-8 fab (50 kDa, Complex from Homo sapiens)
- Niv-8 fab light chain (Protein from Homo sapiens)
- Niv-8 fab heavy chain (Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-8 fab light chain (11 kDa, Protein from Homo sapiens)
- Niv-8 fab (50 kDa, Complex from Homo sapiens)
- 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 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)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-10 focused on RBD and NIV-10 interface
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-10 fab (50 kDa, Complex from Homo sapiens)
- Niv-10 fab heavy chain (Protein from Homo sapiens)
- Niv-10 fab light chain (Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-10 (570 kDa, Complex)
- Sar-cov-2 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-10 (state 1)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-10 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Niv-10 fab heavy chain (Protein from Homo sapiens)
- Niv-10 fab light chain (Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-10 (570 kDa, Complex)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike in complex with neutralizing antibody NIV-10 (state 2)
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 [ Pubmed: 37452031 DOI: doi:10.1038/s41467-023-39890-8 ]
- Niv-10 fab (50 kDa, Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Niv-10 fab heavy chain (Protein from Homo sapiens)
- Niv-10 fab light chain (Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with niv-10 (570 kDa, Complex)
- Sars-cov-2 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)