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 in complex with sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Darpin fsr22 (23 kDa, Protein from Escherichia phage EcSzw-2Escherichia coli)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
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)
- Antibody cr3022 light chain (24 kDa, Protein from Homo sapiens)
- Antibody s309 light chain (23 kDa, Protein from Homo sapiens)
- 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)
Resolution: 4.26 Å
EM Method: Single-particle
Fitted PDBs: 8dw3
Q-score: 0.337
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 cr3022 heavy chain (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Darpin sr16m in complex with sars-cov-2 rbd and antibody fabs, s309 and cr3022 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Antibody s309 light chain (23 kDa, Protein from Homo sapiens)
- Antibody cr3022 light chain (24 kDa, Protein from Homo sapiens)
- Antibody s309 heavy chain (24 kDa, Protein from Homo sapiens)
- Anti-sars-cov-2 darpin sr16m (16 kDa, Protein from Homo sapiens)
Resolution: 7.3 Å
EM Method: Single-particle
Fitted PDBs: 7xxl
Q-score: 0.033
Ku Z, Xie X, Lin J, Gao P, Wu B, El Sahili A, Su H, Liu Y, Ye X, Tan EY, Li X, Fan X, Goh BC, Xiong W, Boyd H, Muruato AE, Deng H, Xia H, Zou J, Kalveram BK, Menachery VD, Zhang N, Lescar J, Shi PY, An Z
Nat Commun (2022) 13 pp. 5552-5552 [ Pubmed: 36138032 DOI: doi:10.1038/s41467-022-33284-y ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Receptor binding domain of wild-type spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Rbd bound to fab14 (Complex)
- Fab14 (Complex from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Fab14 heavy chain (25 kDa, Protein from Homo sapiens)
- Fab14 light chain (22 kDa, Protein from Homo sapiens)
Cryo-EM structure of the HCMV pentamer bound by Fabs 2-18 and 8I21
Resolution: 4.02 Å
EM Method: Single-particle
Fitted PDBs: 7kbb
Q-score: 0.274
Wrapp D, Ye X, Ku Z, Su H, Jones HG, Wang N, Mishra AK, Freed DC, Li F, Tang A, Li L, Jaijyan DK, Zhu H, Wang D, Fu TM, Zhang N, An Z, McLellan JS
Sci Adv (2022) 8 pp. eabm2546-eabm2546 [ Pubmed: 35275718 DOI: doi:10.1126/sciadv.abm2546 ]
- 8i21 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Ul131a (13 kDa, Protein from Human cytomegalovirus)
- Hcmv pentamer (refinement focused on three of the subunits) (Complex from Human betaherpesvirus 5)
- Fab 2-18 (Complex from Homo sapiens)
- Envelope glycoprotein ul130 (21 kDa, Protein from Human cytomegalovirus)
- Fab 8i21 (Complex from Homo sapiens)
- 8i21 fab light chain (23 kDa, Protein from Homo sapiens)
- Hcmv pentamer bound by antibodies 2-18 and 8i21 (280 kDa, Complex)
- Envelope protein ul128 (16 kDa, Protein from Human cytomegalovirus)
- 2-18 fab light chain (23 kDa, Protein from Homo sapiens)
- 2-18 fab heavy chain (25 kDa, Protein from Homo sapiens)
Cryo-EM structure of the HCMV pentamer bound by human neuropilin 2
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 7m22
Q-score: 0.409
Wrapp D, Ye X, Ku Z, Su H, Jones HG, Wang N, Mishra AK, Freed DC, Li F, Tang A, Li L, Jaijyan DK, Zhu H, Wang D, Fu TM, Zhang N, An Z, McLellan JS
Sci Adv (2022) 8 pp. eabm2546-eabm2546 [ Pubmed: 35275718 DOI: doi:10.1126/sciadv.abm2546 ]
- Neuropilin-2 (65 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Ul131a (13 kDa, Protein from Human cytomegalovirus)
- The ectodomain of the hcmv pentamer (Complex from Human betaherpesvirus 5)
- The ectodomain of the hcmv pentamer bound by domains a1a2b1b2 of human neuropilin 2 (230 kDa, Complex)
- Envelope glycoprotein ul130 (21 kDa, Protein from Human cytomegalovirus)
- Envelope protein ul128 (16 kDa, Protein from Human cytomegalovirus)
- Domains a1a2b1b2 of human neuropilin 2 (Complex from Homo sapiens)
Cryo-EM structure of the HCMV pentamer bound by antibodies 1-103, 1-32 and 2-25
Resolution: 3.81 Å
EM Method: Single-particle
Fitted PDBs: 7m30
Q-score: 0.323
Wrapp D, Ye X, Ku Z, Su H, Jones HG, Wang N, Mishra AK, Freed DC, Li F, Tang A, Li L, Jaijyan DK, Zhu H, Wang D, Fu TM, Zhang N, An Z, McLellan JS
Sci Adv (2022) 8 pp. eabm2546-eabm2546 [ Pubmed: 35275718 DOI: doi:10.1126/sciadv.abm2546 ]
- 2-25 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1-103 fab (Complex from Homo sapiens)
- 1-32 fab heavy chain (26 kDa, Protein from Homo sapiens)
- Ul131a (13 kDa, Protein from Human cytomegalovirus)
- 2-25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Envelope glycoprotein l (27 kDa, Protein from Human cytomegalovirus)
- Envelope glycoprotein ul130 (21 kDa, Protein from Human cytomegalovirus)
- 2-25 fab light chain (22 kDa, Protein from Homo sapiens)
- Envelope protein ul128 (16 kDa, Protein from Human cytomegalovirus)
- Hcmv pentamer (Complex from Human betaherpesvirus 5)
- 1-32 fab (Complex from Homo sapiens)
- Quaternary complex of the hcmv pentamer bound by fabs 1-103, 1-32, and 2-25 (310 kDa, Complex)
- 1-32 fab light chain (23 kDa, Protein from Homo sapiens)
- 1-103 fab heavy chain (24 kDa, Protein from Homo sapiens)
- 1-103 fab light chain (22 kDa, Protein from Homo sapiens)