Cryo-EM structure of Antibody 12-16 in complex with prefusion SARS-CoV-2 Spike glycoprotein
Resolution: 3.09 Å
EM Method: Single-particle
Fitted PDBs: 7ukl
Q-score: 0.49
Liu L, Casner RG, Guo Y, Wang Q, Iketani S, Chan JF, Yu J, Dadonaite B, Nair MS, Mohri H, Reddem ER, Yuan S, Poon VK, Chan CC, Yuen KY, Sheng Z, Huang Y, Bloom JD, Shapiro L, Ho DD
Immunity (2023) 56 pp. 2442- [ DOI: doi:10.1016/j.immuni.2023.09.003 Pubmed: 37776849 ]
- 12-16 fab light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody 12-16 in complex with prefusion sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 12-16 fab heavy chain (14 kDa, Protein from Homo sapiens)
Cryo-EM structure of Antibody 12-19 in complex with prefusion SARS-CoV-2 Spike glycoprotein
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 7ukm
Q-score: 0.498
To Be Published
- 12-19 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Antibody 12-19 in complex with prefusion sars-cov-2 spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 12-19 fab light chain (12 kDa, Protein from Homo sapiens)
Venezuelan equine encephalitis virus-like particle in complex with Fab SKT05, local refinement
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8eeu
Q-score: 0.462
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Complex between venezuelan equine encephalitis virus-like particle and fab skt05 (33 MDa, Complex from Venezuelan equine encephalitis virus)
- Fab skt05 light chain (23 kDa, Protein from Macaca fascicularis)
- Coat protein (138 kDa, Protein from Venezuelan equine encephalitis virus)
- Fab skt05 heavy chain (25 kDa, Protein from Macaca fascicularis)
Resolution: 4.17 Å
EM Method: Single-particle
Fitted PDBs: 8dul
Q-score: 0.241
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Spike glycoprotein e1 (52 kDa, Protein from Western equine encephalitis virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein e2 (45 kDa, Protein from Western equine encephalitis virus)
- Antibody fab skt05 heavy chain (25 kDa, Protein from Macaca fascicularis)
- Western equine encephalitis virus trimer in complex with antibody fab skt05 (Complex from Western equine encephalitis virus)
- Antibody fab skt05 light chain (23 kDa, Protein from Macaca fascicularis)
Resolution: 5.84 Å
EM Method: Single-particle
Fitted PDBs: 8dun
Q-score: 0.214
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Spike glycoprotein e1 (52 kDa, Protein from Western equine encephalitis virus)
- Spike glycoprotein e2 (45 kDa, Protein from Western equine encephalitis virus)
- Antibody skw11 heavy chain (24 kDa, Protein from Macaca fascicularis)
- Western equine encephalitis virus trimer in complex with antibody fab skw11 (Complex from Western equine encephalitis virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Antibody skw11 light chain (23 kDa, Protein from Macaca fascicularis)
Cryo-EM local refinement of antibody SKV09 in complex with VEEV alphavirus spike glycoprotein
Resolution: 6.0 Å
EM Method: Single-particle
Fitted PDBs: 8deq
Q-score: 0.19
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Cryo-em local refinement of antibody skv09 in complex with veev alphavirus spike glycoprotein (Complex from Venezuelan equine encephalitis virus)
- Skv09 fab heavy chain (13 kDa, Protein from Macaca)
- Spike glycoprotein e1 (43 kDa, Protein from Venezuelan equine encephalitis virus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Skv09 fab light chain (11 kDa, Protein from Macaca)
Cryo-EM local refinement of antibody SKV16 in complex with VEEV alphavirus spike glycoprotein
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8der
Q-score: 0.443
Sutton MS, Pletnev S, Callahan V, Ko S, Tsybovsky Y, Bylund T, Casner RG, Cerutti G, Gardner CL, Guirguis V, Verardi R, Zhang B, Ambrozak D, Beddall M, Lei H, Yang ES, Liu T, Henry AR, Rawi R, Schon A, Schramm CA, Shen CH, Shi W, Stephens T, Yang Y, Florez MB, Ledgerwood JE, Burke CW, Shapiro L, Fox JM, Kwong PD, Roederer M
Cell (2023) 186 pp. 2672-2689.e25 [ Pubmed: 37295404 DOI: doi:10.1016/j.cell.2023.05.019 ]
- Skv16 fab heavy chain (13 kDa, Protein from Macaca)
- Spike glycoprotein e2 (38 kDa, Protein from Venezuelan equine encephalitis virus)
- Cryo-em local refinement of antibody skv16 in complex with veev alphavirus spike glycoprotein (Complex from Venezuelan equine encephalitis virus)
- Spike glycoprotein e1 (43 kDa, Protein from Venezuelan equine encephalitis virus)
- Skv16 fab light chain (11 kDa, Protein from Macaca)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS-CoV-2 DARPin
Resolution: 3.51 Å
EM Method: Single-particle
Fitted PDBs: 7tyz
Q-score: 0.391
Chonira V, Kwon YD, Gorman J, Case JB, Ku Z, Simeon R, Casner RG, Harris DR, Olia AS, Stephens T, Shapiro L, Bender MF, Boyd H, Teng IT, Tsybovsky Y, Krammer F, Zhang N, Diamond MS, Kwong PD, An Z, Chen Z
Nat Chem Biol (2023) 19 pp. 284-291 [ Pubmed: 36411391 DOI: doi:10.1038/s41589-022-01193-2 ]
- Darpin fsr22 (23 kDa, Protein from Escherichia phage EcSzw-2Escherichia coli)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Darpin fsr22 in complex with sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 4.17 Å
EM Method: Single-particle
Fitted PDBs: 7tz0
Q-score: 0.228
Resolution: 4.11 Å
EM Method: Single-particle
Fitted PDBs: 8dw2
Q-score: 0.351
Chonira V, Kwon YD, Gorman J, Case JB, Ku Z, Simeon R, Casner RG, Harris DR, Olia AS, Stephens T, Shapiro L, Bender MF, Boyd H, Teng IT, Tsybovsky Y, Krammer F, Zhang N, Diamond MS, Kwong PD, An Z, Chen Z
Nat Chem Biol (2023) 19 pp. 284-291 [ Pubmed: 36411391 DOI: doi:10.1038/s41589-022-01193-2 ]
- Antibody s309 heavy chain (24 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Darpin sr22 in complex with sars-cov-2 rbd and antibody fabs, s309 and cr3022 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Antibody cr3022 heavy chain (23 kDa, Protein from Homo sapiens)
- Sr22 (16 kDa, Protein from Escherichia phage EcSzw-2)
- Antibody s309 light chain (23 kDa, Protein from Homo sapiens)
- Antibody cr3022 light chain (24 kDa, Protein from Homo sapiens)