Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 9c44
Q-score: 0.535
Liu P, Huang ML, Guo H, McCallum M, Si JY, Chen YM, Wang CL, Yu X, Shi LL, Xiong Q, Ma CB, Bowen JE, Tong F, Liu C, Sun YH, Yang X, Chen J, Guo M, Li J, Corti D, Veesler D, Shi ZL, Yan H
Nature (2024) 635 pp. 978-986 [ DOI: doi:10.1038/s41586-024-08121-5 Pubmed: 39478224 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2l20 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 s bound by s2l20 fab (Complex from Homo sapiens)
- S2l20 fab heavy chain variable (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 S + S2L20 (local refinement of NTD and S2L20 Fab variable region)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9c45
Q-score: 0.552
Liu P, Huang ML, Guo H, McCallum M, Si JY, Chen YM, Wang CL, Yu X, Shi LL, Xiong Q, Ma CB, Bowen JE, Tong F, Liu C, Sun YH, Yang X, Chen J, Guo M, Li J, Corti D, Veesler D, Shi ZL, Yan H
Nature (2024) 635 pp. 978-986 [ DOI: doi:10.1038/s41586-024-08121-5 Pubmed: 39478224 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S2l20 fab light chain variable region (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 s bound by s2l20 fab (Complex from Homo sapiens)
- S2l20 fab heavy chain variable (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
The interface of JMB2002 Fab binds to SARS-CoV-2 Omicron Variant S
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 7wrv
Q-score: 0.507
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant s (Complex from Mus musculus)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab (Complex)
- Jmb2002 fab light chain (23 kDa, Protein from Mus musculus)
SARS-CoV-2 Omicron Variant S Trimer complexed with three JMB2002 Fab
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 7wpf
Q-score: 0.226
Yin W, Xu Y, Xu P, Cao X, Wu C, Gu C, He X, Wang X, Huang S, Yuan Q, Wu K, Hu W, Huang Z, Liu J, Wang Z, Jia F, Xia K, Liu P, Wang X, Song B, Zheng J, Jiang H, Cheng X, Jiang Y, Deng SJ, Xu HE
Science (2022) 375 pp. 1048-1053 [ Pubmed: 35133176 DOI: doi:10.1126/science.abn8863 ]
- Anti fab nanobody (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron variant s (Complex from Mus musculus)
- Jmb2002 fab heavy chain (25 kDa, Protein from Mus musculus)
- Sars-cov-2 omicron variant s trimer complexed with jmb2002 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Jmb2002 fab (Complex from Lama glama)
- Jmb2002 fab light chain (23 kDa, Protein from Mus musculus)
- Anti-fab nanobody (14 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
The cryo-EM structure of HAV bound to a neutralizing antibody-F4
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6jhq
Q-score: -0.029
Cao L, Liu P, Yang P, Gao Q, Li H, Sun Y, Zhu L, Lin J, Su D, Rao Z, Wang X
PLoS Biol (2019) 17 pp. e3000229-e3000229 [ DOI: doi:10.1371/journal.pbio.3000229 Pubmed: 31039149 ]
- Vp3 (27 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab light chain (23 kDa, Protein from Mus musculus)
- Vp1 (30 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab heavy chain (23 kDa, Protein from Mus musculus)
- Antibody-f4 (Complex from Mus musculus)
- Vp2 (24 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Human hepatitis a virus hu/australia/hm175/1976 (Virus from Human hepatitis A virus Hu/Australia/HM175/1976)
- Human hepatitis a virus hu/australia/hm175/1976 and antibody-f4 (Complex)
The cryo-EM structure of HAV bound to a neutralizing antibody-F6
Resolution: 3.68 Å
EM Method: Single-particle
Fitted PDBs: 6jhr
Q-score: 0.018
Cao L, Liu P, Yang P, Gao Q, Li H, Sun Y, Zhu L, Lin J, Su D, Rao Z, Wang X
PLoS Biol (2019) 17 pp. e3000229-e3000229 [ DOI: doi:10.1371/journal.pbio.3000229 Pubmed: 31039149 ]
- Antibody-f6 (Complex from Mus musculus)
- Human hepatitis a virus and antibody-f6 (Complex)
- Vp3 (27 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab heavy chain (24 kDa, Protein from Mus musculus)
- Vp1 (30 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab light chain (23 kDa, Protein from Mus musculus)
- Human hepatitis a virus (Virus from Human hepatitis A virus)
- Vp2 (24 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
The cryo-EM structure of HAV bound to a neutralizing antibody-F7
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 6jhs
Q-score: -0.015
Cao L, Liu P, Yang P, Gao Q, Li H, Sun Y, Zhu L, Lin J, Su D, Rao Z, Wang X
PLoS Biol (2019) 17 pp. e3000229-e3000229 [ DOI: doi:10.1371/journal.pbio.3000229 Pubmed: 31039149 ]
- Vp3 (27 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Human hepatitis a virus and antibody-f7 (Complex)
- Antibody-f7 (Complex from Mus musculus)
- Vp1 (30 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab heavy chain (23 kDa, Protein from Mus musculus)
- Human hepatitis a virus (Virus from Human hepatitis A virus)
- Vp2 (24 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Fab light chain (23 kDa, Protein from Mus musculus)
The cryo-EM structure of HAV bound to a neutralizing antibody-F9
Resolution: 3.79 Å
EM Method: Single-particle
Fitted PDBs: 6jht
Q-score: 0.207
Cao L, Liu P, Yang P, Gao Q, Li H, Sun Y, Zhu L, Lin J, Su D, Rao Z, Wang X
PLoS Biol (2019) 17 pp. e3000229-e3000229 [ DOI: doi:10.1371/journal.pbio.3000229 Pubmed: 31039149 ]
- Fab light chain (23 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Vp3 (27 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Antibody-f9 (Complex from Mus musculus)
- Fab heavy chain (23 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Vp1 (30 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Human hepatitis a virus (Virus from Human hepatitis A virus)
- Vp2 (24 kDa, Protein from Human hepatitis A virus Hu/Australia/HM175/1976)
- Human hepatitis a virus and antibody-f9 (Complex)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6cmo
Q-score: 0.315
Kang Y, Kuybeda O, de Waal PW, Mukherjee S, Van Eps N, Dutka P, Zhou XE, Bartesaghi A, Erramilli S, Morizumi T, Gu X, Yin Y, Liu P, Jiang Y, Meng X, Zhao G, Melcher K, Ernst OP, Kossiakoff AA, Subramaniam S, Xu HE
Nature (2018) 558 pp. 553-558 [ Pubmed: 29899450 DOI: doi:10.1038/s41586-018-0215-y ]
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus norvegicus)
- Fab light chain (23 kDa, Protein from synthetic construct)
- Protein complex of rhodopsin with galphai (180 MDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Chimera protein of soluble cytochrome b562 and rhodopsin (52 kDa, Protein from Homo sapiens)
- Fab heavy chain (25 kDa, Protein from synthetic construct)