BJOX2000.664 trimer in complex with Fab fragment of broadly neutralizing HIV antibody PGT145
Resolution: 4.9 Å
EM Method: Single-particle
Fitted PDBs: 8jtd
Q-score: 0.211
Hodge EA, Chatterjee A, Chen C, Naika GS, Laohajaratsang M, Mangala Prasad V, Lee KK
Npj Viruses (2023) 1 pp. 2-2 [ Pubmed: 38665238 DOI: doi:10.1038/s44298-023-00002-4 ]
- Bjox2000.664 trimer in complex with broadly neutralizing hiv antibody pgt145 (Complex from Human immunodeficiency virus 1)
- Gp41 protein of hiv envelope trimer (17 kDa, Protein from Human immunodeficiency virus 1)
- Gp120 protein of hiv envelope trimer (54 kDa, Protein from Human immunodeficiency virus 1)
- Pgt145 antibody fragment, heavy chain (28 kDa, Protein from Homo sapiens)
- Pgt145 antibody fragment, light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
CNE55.664 trimer in complex with broadly neutralizing HIV antibody PGT145
Resolution: 5.14 Å
EM Method: Single-particle
Fitted PDBs: 8jtm
Q-score: 0.166
Hodge EA, Chatterjee A, Chen C, Naika GS, Laohajaratsang M, Mangala Prasad V, Lee KK
Npj Viruses (2023) 1 pp. 2-2 [ Pubmed: 38665238 DOI: doi:10.1038/s44298-023-00002-4 ]
- Cne55.664 trimer in complex with broadly neutralizing hiv antibody pgt145 (Complex from Human immunodeficiency virus 1)
- Pgt145 antibody fragment, heavy chain (28 kDa, Protein from Homo sapiens)
- Gp120 protein of hiv envelope trimer (54 kDa, Protein from Human immunodeficiency virus 1)
- Pgt145 antibody fragment, light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Gp41 protein of hiv envelope trimer (17 kDa, Protein from Human immunodeficiency virus 1)
Cryo-EM structure of Lumazine synthase nanoparticle linked to VP8* antigen
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8f25
Q-score: 0.586
Roier S, Mangala Prasad V, McNeal MM, Lee KK, Petsch B, Rauch S
NPJ Vaccines (2023) 8 pp. 190-190 [ Pubmed: 38129390 DOI: doi:10.1038/s41541-023-00790-z ]
Sub-tomogram averaged map of full-length post-fusion CHIKV E1 glycoprotein trimer
Resolution: 27.2 Å
EM Method: Subtomogram averaging
Fitted PDBs: 8d87
Q-score: 0.029
Mangala Prasad V, Blijleven JS, Smit JM, Lee KK
Nat Commun (2022) 13 pp. 4772-4772 [ DOI: doi:10.1038/s41467-022-32431-9 Pubmed: 35970990 ]
- Phosphate ion (94 Da, Ligand)
- Water (18 Da, Ligand)
- Bromide ion (79 Da, Ligand)
- Spike glycoprotein e1 (42 kDa, Protein from Chikungunya virus strain S27-African prototype)
- Sub-tomogram averaged map of post-fusion e1 glycoprotein trimer from chikungunya virus (150 kDa, Complex from Chikungunya virus strain S27-African prototype)
- Holmium atom (164 Da, Ligand)
Sub-tomogram averaged structure of HIV-1 Envelope protein in native membrane
Resolution: 9.1 Å
EM Method: Subtomogram averaging
Fitted PDBs: 7ska
Q-score: 0.067
Mangala Prasad V, Leaman DP, Lovendahl KN, Croft JT, Benhaim MA, Hodge EA, Zwick MB, Lee KK
Cell (2022) 185 pp. 641-653.e17 [ Pubmed: 35123651 DOI: doi:10.1016/j.cell.2022.01.013 ]
- Human immunodeficiency virus 1 (430 kDa, Virus from Human immunodeficiency virus 1)
- Envelope glycoprotein gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Alpha-l-fucopyranose (164 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp41 (16 kDa, Protein from Human immunodeficiency virus 1)
Complex structure of HIV superinfection Fab QA013.2 and BG505.SOSIP.664
Resolution: 4.15 Å
EM Method: Single-particle
Fitted PDBs: 7n65
Q-score: 0.348
Shipley MM, Mangala Prasad V, Doepker LE, Dingens AS, Ralph DK, Harkins E, Dhar A, Arenz D, Chohan V, Weight H, Mandaliya K, Bloom JD, Matsen Iv F, Lee KK, Overbaugh JM
eLife (2021) 10 [ Pubmed: 34263727 DOI: doi:10.7554/eLife.68110 ]
- Fab qa013.2 light chain, , variable region (11 kDa, Protein from Homo sapiens)
- Complex of hiv-1 envelope protein with super-infection fab qa013.2 (500 kDa, Complex from Human immunodeficiency virus 1)
- Alpha-d-mannopyranose (180 Da, Ligand)
- Fab qa013.2 heavy chain, variable region (14 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (18 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp41 (56 kDa, Protein from Human immunodeficiency virus 1)
Cryo-EM structure of BG505.SOSIP.664 in complex with BF520.1 antigen binding fragment
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 6mn7
Q-score: 0.049
Simonich CA, Doepker L, Ralph D, Williams JA, Dhar A, Yaffe Z, Gentles L, Small CT, Oliver B, Vigdorovich V, Mangala Prasad V, Nduati R, Sather DN, Lee KK, Matsen Iv FA, Overbaugh J
Nat Commun (2019) 10 pp. 2190-2190 [ Pubmed: 31097697 DOI: doi:10.1038/s41467-019-09481-7 ]
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Bf520.1 fab variable region (25 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Cryo-em structure of bf520.1 fab in complex with bg505.sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)