Cryo-EM structure of broadly neutralizing V2-apex-targeting antibody J033 in complex with HIV-1 Env
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7n28
Q-score: 0.385
Gao N, Gai Y, Meng L, Wang C, Wang W, Li X, Gu T, Louder MK, Doria-Rose NA, Wiehe K, Nazzari AF, Olia AS, Gorman J, Rawi R, Wu W, Smith C, Khant H, de Val N, Yu B, Luo J, Niu H, Tsybovsky Y, Liao H, Kepler TB, Kwong PD, Mascola JR, Qin C, Zhou T, Yu X, Gao F
Adv Sci (2022) 9 pp. e2200063-e2200063 [ DOI: doi:10.1002/advs.202200063 Pubmed: 35319830 ]
- Phosphate ion (94 Da, Ligand)
- J033 antibody heavy chain (24 kDa, Protein from Macaca mulatta)
- 3bnc117 antibody heavy chain (24 kDa, Protein from Homo sapiens)
- Alpha-d-mannopyranose (180 Da, Ligand)
- A complex of hiv-1 env with antibodies 3bnc117 and j033 (Complex from Homo sapiens)
- J033 antibody light chain (23 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (19 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 3bnc117 antibody light chain (23 kDa, Protein from Homo sapiens)
Outer dynein arm bound to doublet microtubules from C. reinhardtii
Resolution: 7.5 Å
EM Method: Helical reconstruction
Fitted PDBs: 7kzm
Q-score: 0.315
Nat Commun (2021) 12 pp. 477-477 [ DOI: doi:10.1038/s41467-020-20735-7 Pubmed: 33473120 ]
- Flagellar outer dynein arm light chain 2 (15 kDa, Protein from Chlamydomonas reinhardtii)
- Flagellar outer dynein arm heavy chain beta (520 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein 11 kda light chain, flagellar outer arm (13 kDa, Protein from Chlamydomonas reinhardtii)
- Oda complex (Complex from Chlamydomonas reinhardtii)
- Dynein, 70 kda intermediate chain, flagellar outer arm (63 kDa, Protein from Chlamydomonas reinhardtii)
- Outer dynein arm-docking complex subunit 1 (83 kDa, Protein from Chlamydomonas reinhardtii)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Dynein light chain roadblock lc7b (11 kDa, Protein from Chlamydomonas reinhardtii)
- Outer dynein arm-docking complex protein dc3 (21 kDa, Protein from Chlamydomonas reinhardtii)
- Dc2 (14 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein 8 kda light chain, flagellar outer arm (10 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain 10 (12 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain roadblock lc7a (11 kDa, Protein from Chlamydomonas reinhardtii)
- Dc1 (13 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein gamma chain, flagellar outer arm (513 kDa, Protein from Chlamydomonas reinhardtii)
- Tubulin beta (49 kDa, Protein from Chlamydomonas reinhardtii)
- Outer dynein arm protein 1 (62 kDa, Protein from Chlamydomonas reinhardtii)
- Heavy chain alpha (504 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein, 78 kda intermediate chain, flagellar outer arm (76 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain 9 (12 kDa, Protein from Chlamydomonas reinhardtii)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Dynein 18 kda light chain, flagellar outer arm (17 kDa, Protein from Chlamydomonas reinhardtii)
- Tubulin alpha (49 kDa, Protein from Chlamydomonas reinhardtii)
Outer dynein arm core subcomplex from C. reinhardtii
Resolution: 4.0 Å
EM Method: Helical reconstruction
Fitted PDBs: 7kzn
Q-score: 0.376
Nat Commun (2021) 12 pp. 477-477 [ DOI: doi:10.1038/s41467-020-20735-7 Pubmed: 33473120 ]
- Dynein light chain roadblock lc7a (11 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein gamma chain, flagellar outer arm (513 kDa, Protein from Chlamydomonas reinhardtii)
- Flagellar outer dynein arm light chain 2 (15 kDa, Protein from Chlamydomonas reinhardtii)
- Dc1 (10 kDa, Protein from Chlamydomonas reinhardtii)
- Flagellar outer dynein arm heavy chain beta (520 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain roadblock lc7b (11 kDa, Protein from Chlamydomonas reinhardtii)
- Outer dynein arm-docking complex protein dc3 (21 kDa, Protein from Chlamydomonas reinhardtii)
- Oda core subcomplex (Complex from Chlamydomonas reinhardtii)
- Dynein 18 kda light chain, flagellar outer arm (17 kDa, Protein from Chlamydomonas reinhardtii)
- Dc2 (14 kDa, Protein from Chlamydomonas reinhardtii)
- Heavy chain alpha (504 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein, 78 kda intermediate chain, flagellar outer arm (76 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein 8 kda light chain, flagellar outer arm (10 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein 11 kda light chain, flagellar outer arm (13 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain 9 (12 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein, 70 kda intermediate chain, flagellar outer arm (63 kDa, Protein from Chlamydomonas reinhardtii)
- Dynein light chain 10 (12 kDa, Protein from Chlamydomonas reinhardtii)
Resolution: 7.2 Å
EM Method: Single-particle
Fitted PDBs: 6l62
Q-score: 0.133
Huang L, Sun Z, Xia D, Wei Y, Sun E, Liu C, Zhu H, Bian H, Wu H, Feng L, Wang J, Liu C
J Virol (2020) 94 [ DOI: doi:10.1128/JVI.01836-19 Pubmed: 32075932 ]
- Pcv2 virion in complex with fab fragments of the mab 3a5 (Complex from Mus musculus)
- Capsid protein (27 kDa, Protein from Porcine circovirus 2)
- Heavy chain of fab fragment (23 kDa, Protein from Mus musculus)
- Pcv2 virion (Complex)
- Heavy chain of fab fragment fab of the mab 3a5 (Complex from mus muscu)
- Light chain of fab fragment (23 kDa, Protein from Mus musculus)
- Light chain of fab fragment of the mab 3a5 (Complex from Mus musculus)
Fit R10 Fab coordinates into the cryo-EM of EV71 in complex with D6
Resolution: 4.9 Å
EM Method: Single-particle
Fitted PDBs: 5zud
Q-score: 0.186
Zhu L, Xu K, Wang N, Cao L, Wu J, Gao Q, Fry EE, Stuart DI, Rao Z, Wang J, Wang X
Mbio (2018) 9 [ DOI: doi:10.1128/mBio.01013-18 Pubmed: 29970466 ]
- D6 neutralizing antibody fab (Complex from Mus musculoides)
- Capsid protein vp1 (32 kDa, Protein from Enterovirus A71)
- Vp2 (26 kDa, Protein from Enterovirus A71)
- Vp3 (26 kDa, Protein from Enterovirus A71)
- Complex of ev71 and d6 neutralizing antibody fab (Complex)
- R10 antibody light chain (23 kDa, Protein from Mus musculoides)
- R10 antibody heavy chain (23 kDa, Protein from Mus musculoides)
- Ev71 (Complex from Enterovirus A71)
Cryo-EM structure of HIV-1 neutralizing antibody DH270 UCA3 in complex with CH848 10.17DT Env
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6um5
Q-score: 0.347
Saunders KO, Wiehe K, Tian M, Acharya P, Bradley T, Alam SM, Go EP, Scearce R, Sutherland L, Henderson R, Hsu AL, Borgnia MJ, Chen H, Lu X, Wu NR, Watts B, Jiang C, Easterhoff D, Cheng HL, McGovern K, Waddicor P, Chapdelaine-Williams A, Eaton A, Zhang J, Rountree W, Verkoczy L, Tomai M, Lewis MG, Desaire HR, Edwards RJ, Cain DW, Bonsignori M, Montefiori D, Alt FW, Haynes BF
Science (2019) 366 [ Pubmed: 31806786 DOI: doi:10.1126/science.aay7199 ]
- Dh270 uca3 fab light chain (22 kDa, Protein from Homo sapiens)
- Dh270 uca3 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (17 kDa, Protein from Human immunodeficiency virus 1)
- Dh270 uca3 fab bound to hiv-1 env ch848 10.17dt (360 kDa, Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ch848 10.17 dt gp120 (51 kDa, Protein from Human immunodeficiency virus 1)