SARS-CoV-2 XBB.1 spike glycoprotein (closed-1 state)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8ios
Q-score: 0.579
Tamura T, Ito J, Uriu K, Zahradnik J, Kida I, Anraku Y, Nasser H, Shofa M, Oda Y, Lytras S, Nao N, Itakura Y, Deguchi S, Suzuki R, Wang L, Begum MM, Kita S, Yajima H, Sasaki J, Sasaki-Tabata K, Shimizu R, Tsuda M, Kosugi Y, Fujita S, Pan L, Sauter D, Yoshimatsu K, Suzuki S, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Yamamoto Y, Nagamoto T, Schreiber G, Maenaka K, Hashiguchi T, Ikeda T, Fukuhara T, Saito A, Tanaka S, Matsuno K, Takayama K, Sato K
Nat Commun (2023) 14 pp. 2800-2800 [ DOI: doi:10.1038/s41467-023-38435-3 Pubmed: 37193706 ]
SARS-CoV-2 XBB.1 spike glycoprotein (closed-2 state)
Resolution: 2.51 Å
EM Method: Single-particle
Fitted PDBs: 8iot
Q-score: 0.506
Tamura T, Ito J, Uriu K, Zahradnik J, Kida I, Anraku Y, Nasser H, Shofa M, Oda Y, Lytras S, Nao N, Itakura Y, Deguchi S, Suzuki R, Wang L, Begum MM, Kita S, Yajima H, Sasaki J, Sasaki-Tabata K, Shimizu R, Tsuda M, Kosugi Y, Fujita S, Pan L, Sauter D, Yoshimatsu K, Suzuki S, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Yamamoto Y, Nagamoto T, Schreiber G, Maenaka K, Hashiguchi T, Ikeda T, Fukuhara T, Saito A, Tanaka S, Matsuno K, Takayama K, Sato K
Nat Commun (2023) 14 pp. 2800-2800 [ DOI: doi:10.1038/s41467-023-38435-3 Pubmed: 37193706 ]
SARS-CoV-2 XBB.1 spike glycoprotein in complex with ACE2 (1-up state)
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 8iou
Q-score: 0.388
Tamura T, Ito J, Uriu K, Zahradnik J, Kida I, Anraku Y, Nasser H, Shofa M, Oda Y, Lytras S, Nao N, Itakura Y, Deguchi S, Suzuki R, Wang L, Begum MM, Kita S, Yajima H, Sasaki J, Sasaki-Tabata K, Shimizu R, Tsuda M, Kosugi Y, Fujita S, Pan L, Sauter D, Yoshimatsu K, Suzuki S, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Yamamoto Y, Nagamoto T, Schreiber G, Maenaka K, Hashiguchi T, Ikeda T, Fukuhara T, Saito A, Tanaka S, Matsuno K, Takayama K, Sato K
Nat Commun (2023) 14 pp. 2800-2800 [ DOI: doi:10.1038/s41467-023-38435-3 Pubmed: 37193706 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 xbb.1 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 xbb.1 spike glycoprotein in complex with ace2 (510 kDa, Complex)
- Processed angiotensin-converting enzyme 2 (70 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme 2 (90 kDa, Complex from Homo sapiens)
SARS-CoV-2 XBB.1 spike glycoprotein in complex with ACE2 (2-up state)
Tamura T, Ito J, Uriu K, Zahradnik J, Kida I, Anraku Y, Nasser H, Shofa M, Oda Y, Lytras S, Nao N, Itakura Y, Deguchi S, Suzuki R, Wang L, Begum MM, Kita S, Yajima H, Sasaki J, Sasaki-Tabata K, Shimizu R, Tsuda M, Kosugi Y, Fujita S, Pan L, Sauter D, Yoshimatsu K, Suzuki S, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Yamamoto Y, Nagamoto T, Schreiber G, Maenaka K, Hashiguchi T, Ikeda T, Fukuhara T, Saito A, Tanaka S, Matsuno K, Takayama K, Sato K
Nat Commun (2023) 14 pp. 2800-2800 [ DOI: doi:10.1038/s41467-023-38435-3 Pubmed: 37193706 ]
- Sars-cov-2 xbb.1 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 xbb.1 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 xbb.1 spike glycoprotein in complex with ace2 (600 kDa, Complex)
- Angiotensin-converting enzyme 2 (Protein from Homo sapiens)
- Angiotensin-converting enzyme 2 (90 kDa, Complex from Homo sapiens)
SARS-CoV-2 XBB.1 spike glycoprotein in complex with ACE2 focused on RBD-ACE2 interface
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 8iov
Q-score: 0.459
Tamura T, Ito J, Uriu K, Zahradnik J, Kida I, Anraku Y, Nasser H, Shofa M, Oda Y, Lytras S, Nao N, Itakura Y, Deguchi S, Suzuki R, Wang L, Begum MM, Kita S, Yajima H, Sasaki J, Sasaki-Tabata K, Shimizu R, Tsuda M, Kosugi Y, Fujita S, Pan L, Sauter D, Yoshimatsu K, Suzuki S, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Yamamoto Y, Nagamoto T, Schreiber G, Maenaka K, Hashiguchi T, Ikeda T, Fukuhara T, Saito A, Tanaka S, Matsuno K, Takayama K, Sato K
Nat Commun (2023) 14 pp. 2800-2800 [ DOI: doi:10.1038/s41467-023-38435-3 Pubmed: 37193706 ]
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 xbb.1 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (70 kDa, Protein from Homo sapiens)
- Sars-cov-2 xbb spike glycoprotein in complex with ace2 (510 kDa, Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme 2 (90 kDa, Complex from Homo sapiens)
SARS-CoV-2 BA.2.75 spike glycoprotein (closed state 1)
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8gs6
Q-score: 0.531
Saito A, Tamura T, Zahradnik J, Deguchi S, Tabata K, Anraku Y, Kimura I, Ito J, Yamasoba D, Nasser H, Toyoda M, Nagata K, Uriu K, Kosugi Y, Fujita S, Shofa M, Monira Begum M, Shimizu R, Oda Y, Suzuki R, Ito H, Nao N, Wang L, Tsuda M, Yoshimatsu K, Kuramochi J, Kita S, Sasaki-Tabata K, Fukuhara H, Maenaka K, Yamamoto Y, Nagamoto T, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Ueno T, Schreiber G, Takaori-Kondo A, Shirakawa K, Sawa H, Irie T, Hashiguchi T, Takayama K, Matsuno K, Tanaka S, Ikeda T, Fukuhara T, Sato K
Cell Host Microbe (2022) 30 pp. 1540-1555.e15 [ Pubmed: 36272413 DOI: doi:10.1016/j.chom.2022.10.003 ]
SARS-CoV-2 BA.2.75 spike glycoprotein (closed state 2)
Saito A, Tamura T, Zahradnik J, Deguchi S, Tabata K, Anraku Y, Kimura I, Ito J, Yamasoba D, Nasser H, Toyoda M, Nagata K, Uriu K, Kosugi Y, Fujita S, Shofa M, Monira Begum M, Shimizu R, Oda Y, Suzuki R, Ito H, Nao N, Wang L, Tsuda M, Yoshimatsu K, Kuramochi J, Kita S, Sasaki-Tabata K, Fukuhara H, Maenaka K, Yamamoto Y, Nagamoto T, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Ueno T, Schreiber G, Takaori-Kondo A, Shirakawa K, Sawa H, Irie T, Hashiguchi T, Takayama K, Matsuno K, Tanaka S, Ikeda T, Fukuhara T, Sato K
Cell Host Microbe (2022) 30 pp. 1540-1555.e15 [ Pubmed: 36272413 DOI: doi:10.1016/j.chom.2022.10.003 ]
SARS-CoV-2 BA.2.75 spike glycoprotein (1-up state)
Saito A, Tamura T, Zahradnik J, Deguchi S, Tabata K, Anraku Y, Kimura I, Ito J, Yamasoba D, Nasser H, Toyoda M, Nagata K, Uriu K, Kosugi Y, Fujita S, Shofa M, Monira Begum M, Shimizu R, Oda Y, Suzuki R, Ito H, Nao N, Wang L, Tsuda M, Yoshimatsu K, Kuramochi J, Kita S, Sasaki-Tabata K, Fukuhara H, Maenaka K, Yamamoto Y, Nagamoto T, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Ueno T, Schreiber G, Takaori-Kondo A, Shirakawa K, Sawa H, Irie T, Hashiguchi T, Takayama K, Matsuno K, Tanaka S, Ikeda T, Fukuhara T, Sato K
Cell Host Microbe (2022) 30 pp. 1540-1555.e15 [ Pubmed: 36272413 DOI: doi:10.1016/j.chom.2022.10.003 ]
SARS-CoV-2 BA.2.75 spike glycoprotein in complex with ACE2
Saito A, Tamura T, Zahradnik J, Deguchi S, Tabata K, Anraku Y, Kimura I, Ito J, Yamasoba D, Nasser H, Toyoda M, Nagata K, Uriu K, Kosugi Y, Fujita S, Shofa M, Monira Begum M, Shimizu R, Oda Y, Suzuki R, Ito H, Nao N, Wang L, Tsuda M, Yoshimatsu K, Kuramochi J, Kita S, Sasaki-Tabata K, Fukuhara H, Maenaka K, Yamamoto Y, Nagamoto T, Asakura H, Nagashima M, Sadamasu K, Yoshimura K, Ueno T, Schreiber G, Takaori-Kondo A, Shirakawa K, Sawa H, Irie T, Hashiguchi T, Takayama K, Matsuno K, Tanaka S, Ikeda T, Fukuhara T, Sato K
Cell Host Microbe (2022) 30 pp. 1540-1555.e15 [ Pubmed: 36272413 DOI: doi:10.1016/j.chom.2022.10.003 ]
- Sars-cov-2 ba.2.75 spike glycoprotein in complex with ace2 (500 kDa, Complex)
- Sars-cov-2 ba.2.75 spike glycoprotein (420 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 ba.2.75 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)
- Human angiotensin-converting enzyme 2 (80 kDa, Complex from Homo sapiens)
- Human angiotensin-converting enzyme 2 (Protein from Homo sapiens)
SARS-CoV-2 spike glycoprotein in complex with neutralizing antibody UT28K
Ozawa T, Tani H, Anraku Y, Kita S, Igarashi E, Saga Y, Inasaki N, Kawasuji H, Yamada H, Sasaki SI, Somekawa M, Sasaki J, Hayakawa Y, Yamamoto Y, Morinaga Y, Kurosawa N, Isobe M, Fukuhara H, Maenaka K, Hashiguchi T, Kishi H, Kitajima I, Saito S, Niimi H
MABs (2022) 14 pp. 2072455-2072455 [ Pubmed: 35543180 DOI: doi:10.1080/19420862.2022.2072455 ]
- Sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ut28k fab light chain (Protein from Homo sapiens)
- Ut28k fab heavy chain (Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein in complex with ut28k (50 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Ut28k fab (Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Protein from Severe acute respiratory syndrome coronavirus 2)