Stabilised BA.1 SARS-CoV-2 spike with H6 nanobodies in '2 up 1 down' RBD conformation
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8oyu
Q-score: 0.145
Cornish KAS, Weckener M, Naismith JH, Owens RJ
To Be Published
- Spike glycoprotein,fibritin (139 kDa, Protein from Enterobacteria phage T4)
- H6 nanobody (Complex from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Complex of stabilised hexapro omicron ba.1 spike trimer with two h6 nanobodies (Complex)
- H6 nanobody (13 kDa, Protein from Lama glama)
- Stabilised hexapro omicron ba.1 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron BA.1 spike trimer (x2-4P) in complex with 3 D1F6 Fabs (0 RBD up)
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 8zby
Q-score: 0.372
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.1 spike trimer (x2-4p) in complex with 3 d1f6 fabs (0 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.2 spike trimer (6P) in complex with 3 D1F6 Fabs (1 RBD up)
Resolution: 4.71 Å
EM Method: Single-particle
Fitted PDBs: 8zbz
Q-score: 0.272
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.2 spike trimer (6p) in complex with 3 d1f6 fabs (1 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.2 spike trimer (6P) in complex with 3 D1F6 Fabs (2 RBD up)
Resolution: 4.17 Å
EM Method: Single-particle
Fitted PDBs: 8zc0
Q-score: 0.338
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.2 spike trimer (6p) in complex with 3 d1f6 fabs (2 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.2 spike trimer (6P) in complex with D1F6 Fab, focused refinement of RBD region
Resolution: 4.17 Å
EM Method: Single-particle
Fitted PDBs: 8zc1
Q-score: 0.335
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.2 spike trimer (6p) in complex with d1f6 fab, focused refinement of rbd region (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with 3 D1F6 Fabs (1 RBD up)
Resolution: 4.69 Å
EM Method: Single-particle
Fitted PDBs: 8zc3
Q-score: 0.29
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with 3 d1f6 fabs (1 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with 3 D1F6 Fabs (2 RBD up)
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 8zc4
Q-score: 0.372
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with 3 d1f6 fabs (2 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with D1F6 Fab, focused refinement of RBD region
Resolution: 3.91 Å
EM Method: Single-particle
Fitted PDBs: 8zc5
Q-score: 0.439
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Heavy chain of d1f6 fab (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with d1f6 fab, focused refinement of rbd region (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (11 kDa, Protein from Homo sapiens)
Cryo-EM of SARS-CoV-2 5' proximal stem-loops 5-6 with SL5c extended
Kretsch RC, Xu L, Zheludev IN, Zhou X, Huang R, Nye G, Li S, Zhang K, Chiu W, Das R
Proc Natl Acad Sci U S A (2024) 121 [ Pubmed: 38427602 DOI: 10.1073/pnas.2320493121 ]
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