Cryo-EM structure of llama J3 VHH antibody in complex with HIV-1 Env BG505 DS-SOSIP.664
Resolution: 3.61 Å
EM Method: Single-particle
Fitted PDBs: 7lpn
Q-score: 0.465
Zhou T, Chen L, Gorman J, Wang S, Kwon YD, Lin BC, Louder MK, Rawi R, Stancofski ED, Yang Y, Zhang B, Quigley AF, McCoy LE, Rutten L, Verrips T, Weiss RA, Doria-Rose NA, Shapiro L, Kwong PD
Structure (2022) 30 pp. 862-875.e4 [ Pubmed: 35413243 DOI: doi:10.1016/j.str.2022.03.012 ]
- Hiv-1 env with llama j3 vhh (Complex from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- J3 vhh (14 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp160 (53 kDa, Protein from Human immunodeficiency virus 1)
Cryo-EM structure of M4008_N1 Fab in complex with BG505 DS-SOSIP.664 Env trimer
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 7rai
Q-score: 0.529
Chan KW, Luo CC, Lu H, Wu X, Kong XP
Nat Commun (2021) 12 pp. 6464-6464 [ Pubmed: 34753944 DOI: doi:10.1038/s41467-021-26846-z ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- M4008_n1 fab in complex with bg505 ds-sosip.664 env trimer (Complex from Homo sapiens)
- Envelope glycoprotein gp160 (53 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- M4008_n1 fab light chain (23 kDa, Protein from Homo sapiens)
- M4008_n1 fab heavy chain (28 kDa, Protein from Homo sapiens)
Ab1245 Fab in complex with BG505 SOSIP.664 and 8ANC195 Fab
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7mxe
Q-score: 0.492
Abernathy ME, Gristick HB, Vielmetter J, Keeffe JR, Gnanapragasam PNP, Lee YE, Escolano A, Gautam R, Seaman MS, Martin MA, Nussenzweig MC, Bjorkman PJ
NPJ Vaccines (2021) 6 pp. 126-126 [ Pubmed: 34697307 DOI: doi:10.1038/s41541-021-00387-4 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein bg505 sosip.664 gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Bg505 sosip.664 trimer (Complex from Human immunodeficiency virus 1)
- Ab1245 fab (Complex from Macaca mulatta)
- 8anc195 g52k5 fab heavy chain (26 kDa, Protein from Homo sapiens)
- 8anc195 g52k5 fab light chain (23 kDa, Protein from Homo sapiens)
- Complex of nhp-isolated ab1245 fab and bnab 8anc195 g52k5 fab bound to bg505 sosip.664 trimer (500 kDa, Complex)
- Ab1245 fab heavy chain (28 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 8anc195 g52k5 fab (Complex from Homo sapiens)
- Ab1245 fab light chain (25 kDa, Protein from Macaca mulatta)
Structure of CD4 mimetic BNM-III-170 in complex with BG505 SOSIP.664 HIV-1 Env trimer and 17b Fab
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7lo6
Q-score: 0.456
Jette CA, Barnes CO, Kirk SM, Melillo B, Smith III AB, Bjorkman PJ
Nat Commun (2021) 12 pp. 1950-1950 [ Pubmed: 33782388 DOI: doi:10.1038/s41467-021-21816-x ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein bg505 sosip.664 gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- 17b fab heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 sosip.664 hiv-1 env trimer (Complex from Human immunodeficiency virus 1)
- 17b fab light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- ~{n}'-[(1~{r},2~{r})-2-(carbamimidamidomethyl)-5-(methylaminomethyl)-2,3-dihydro-1~{h}-inden-1-yl]-~{n}-(4-chloranyl-3-fluoranyl-phenyl)ethanediamide (446 Da, Ligand)
- 17b fab (Complex from Homo sapiens)
- Complex of bg505 sosip.664 env with cd4 mimetic bnm-iii-170 and 17b fab (Complex)
HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293F cells in complex with RM20A3 Fab
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6x9r
Q-score: 0.551
Berndsen ZT, Chakraborty S, Wang X, Cottrell CA, Torres JL, Diedrich JK, Lopez CA, Yates 3rd JR, van Gils MJ, Paulson JC, Gnanakaran S, Ward AB
PNAS (2020) 117 pp. 28014-28025 [ Pubmed: 33093196 DOI: doi:10.1073/pnas.2000260117 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 fab (Complex from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664 expressed in hek293f cells in complex with rm20a3 fab (Complex)
HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in stable CHO cells in complex with RM20A3 Fab
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6x9s
Q-score: 0.547
Berndsen ZT, Chakraborty S, Wang X, Cottrell CA, Torres JL, Diedrich JK, Lopez CA, Yates 3rd JR, van Gils MJ, Paulson JC, Gnanakaran S, Ward AB
PNAS (2020) 117 pp. 28014-28025 [ Pubmed: 33093196 DOI: doi:10.1073/pnas.2000260117 ]
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664 expressed in stable cho cells in complex with rm20a3 fab (Complex)
- Hiv-1 envelope glycoprotein bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab (Complex from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293S cells in complex with RM20A3 Fab
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6x9t
Q-score: 0.545
Berndsen ZT, Chakraborty S, Wang X, Cottrell CA, Torres JL, Diedrich JK, Lopez CA, Yates 3rd JR, van Gils MJ, Paulson JC, Gnanakaran S, Ward AB
PNAS (2020) 117 pp. 28014-28025 [ Pubmed: 33093196 DOI: doi:10.1073/pnas.2000260117 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664 expressed in hek293s cells in complex with rm20a3 fab (Complex)
- Hiv-1 envelope glycoprotein bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 fab (Complex from Macaca mulatta)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6x9u
Q-score: 0.538
Berndsen ZT, Chakraborty S, Wang X, Cottrell CA, Torres JL, Diedrich JK, Lopez CA, Yates 3rd JR, van Gils MJ, Paulson JC, Gnanakaran S, Ward AB
PNAS (2020) 117 pp. 28014-28025 [ Pubmed: 33093196 DOI: doi:10.1073/pnas.2000260117 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664, expressed in hek293s cells and partially deglycosylated by endoglycosidase h, in complex with rm20a3 fab (Complex)
- Hiv-1 envelope glycoprotein bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 fab (Complex from Macaca mulatta)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6x9v
Q-score: 0.487
Berndsen ZT, Chakraborty S, Wang X, Cottrell CA, Torres JL, Diedrich JK, Lopez CA, Yates 3rd JR, van Gils MJ, Paulson JC, Gnanakaran S, Ward AB
PNAS (2020) 117 pp. 28014-28025 [ Pubmed: 33093196 DOI: doi:10.1073/pnas.2000260117 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp120 (57 kDa, Protein from Human immunodeficiency virus 1)
- Rm20a3 fab heavy chain (13 kDa, Protein from Macaca mulatta)
- Rm20a3 fab light chain (13 kDa, Protein from Macaca mulatta)
- Hiv-1 envelope glycoprotein bg505 sosip.664, expressed in hek293s cells and deglycosylated by endoglycosidase h, in complex with rm20a3 fab (Complex)
- Hiv-1 envelope glycoprotein bg505 sosip.664 (Complex from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rm20a3 fab (Complex from Macaca mulatta)
Resolution: 3.55 Å
EM Method: Single-particle
Fitted PDBs: 7kde
Q-score: 0.514
Wang Z, Barnes CO, Gautam R, Cetrulo Lorenzi JC, Mayer CT, Oliveira TY, Ramos V, Cipolla M, Gordon KM, Gristick HB, West AP, Nishimura Y, Raina H, Seaman MS, Gazumyan A, Martin M, Bjorkman PJ, Nussenzweig MC, Escolano A
eLife (2020) 9 [ DOI: doi:10.7554/eLife.61991 Pubmed: 33084569 ]
- Hiv-1 envelope glycoprotein bg505 sosip.664 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- 8anc195 fab heavy chain (26 kDa, Protein from Homo sapiens)
- 8anc195 fab light chain (23 kDa, Protein from Homo sapiens)
- Ab 1485 heavy chain (25 kDa, Protein from Homo sapiens)
- Ab 1485 light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ternary complex of hiv-1 env glycoprotein, bg505. sosip.664, with broadly neutralizing antibodies 1485 and 8anc195 (600 kDa, Complex from Homo sapiens)
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)