H10ssF: ferritin-based nanoparticle displaying H10 hemagglutinin stabilized stem epitopes
Moin SM, Boyington JC, Boyoglu-Barnum S, Gillespie RA, Cerutti G, Cheung CS, Cagigi A, Gallagher JR, Brand J, Prabhakaran M, Tsybovsky Y, Stephens T, Fisher BE, Creanga A, Ataca S, Rawi R, Corbett KS, Crank MC, Karlsson Hedestam GB, Gorman J, McDermott AB, Harris AK, Zhou T, Kwong PD, Shapiro L, Mascola JR, Graham BS, Kanekiyo M
Immunity (2022) 55 pp. 2405-2418.e7 [ DOI: doi:10.1016/j.immuni.2022.10.015 Pubmed: 36356572 ]
- H10ssf (Protein from Helicobacter pylori)
- H10ssf (1 MDa, Complex from Influenza A virus)
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 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Alpha-d-mannopyranose (180 Da, Ligand)
- 3bnc117 antibody heavy chain (24 kDa, Protein from Homo sapiens)
- Phosphate ion (94 Da, Ligand)
- Envelope glycoprotein gp41 (19 kDa, Protein from Human immunodeficiency virus 1)
- J033 antibody heavy chain (24 kDa, Protein from Macaca mulatta)
- 3bnc117 antibody light chain (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- J033 antibody light chain (23 kDa, Protein from Macaca mulatta)
- A complex of hiv-1 env with antibodies 3bnc117 and j033 (Complex from Homo sapiens)
Cryo-EM structure of broadly neutralizing V2-apex-targeting antibody J038 in complex with HIV-1 Env
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7mxd
Q-score: 0.47
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 ]
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- Phosphate ion (94 Da, Ligand)
- A complex of hiv-1 env with antibodies 3bnc117 and j038 (Complex from Homo sapiens)
- 3bnc117 antibody light chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 3bnc117 antibody heavy chain (24 kDa, Protein from Homo sapiens)
- J038 antibody light chain (23 kDa, Protein from Macaca mulatta)
- J038 antibody heavy chain (24 kDa, Protein from Macaca mulatta)
Structure of freshly purified SARS-CoV-2 S2P spike at pH 7.4
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7mtc
Q-score: 0.6
Olia AS, Tsybovsky Y, Chen SJ, Liu C, Nazzari AF, Ou L, Wang L, Kong WP, Leung K, Liu T, Stephens T, Teng IT, Wang S, Yang ES, Zhang B, Zhang Y, Zhou T, Mascola JR, Kwong PD
J Biol Chem (2021) 297 pp. 101127-101127 [ DOI: doi:10.1016/j.jbc.2021.101127 Pubmed: 34461095 ]
Structure of aged SARS-CoV-2 S2P spike at pH 7.4
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7mtd
Q-score: 0.443
Olia AS, Tsybovsky Y, Chen SJ, Liu C, Nazzari AF, Ou L, Wang L, Kong WP, Leung K, Liu T, Stephens T, Teng IT, Wang S, Yang ES, Zhang B, Zhang Y, Zhou T, Mascola JR, Kwong PD
J Biol Chem (2021) 297 pp. 101127-101127 [ DOI: doi:10.1016/j.jbc.2021.101127 Pubmed: 34461095 ]
Structure of SARS-CoV-2 S2P spike at pH 7.4 refolded by low-pH treatment
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7mte
Q-score: 0.523
Olia AS, Tsybovsky Y, Chen SJ, Liu C, Nazzari AF, Ou L, Wang L, Kong WP, Leung K, Liu T, Stephens T, Teng IT, Wang S, Yang ES, Zhang B, Zhang Y, Zhou T, Mascola JR, Kwong PD
J Biol Chem (2021) 297 pp. 101127-101127 [ DOI: doi:10.1016/j.jbc.2021.101127 Pubmed: 34461095 ]
Prefusion RSV F glycoprotein bound by neutralizing site V-directed antibody ADI-14442
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7lue
Q-score: 0.572
Mukhamedova M, Wrapp D, Shen CH, Gilman MSA, Ruckwardt TJ, Schramm CA, Ault L, Chang L, Derrien-Colemyn A, Lucas SAM, Ransier A, Darko S, Phung E, Wang L, Zhang Y, Rush SA, Madan B, Stewart-Jones GBE, Costner PJ, Holman LA, Hickman SP, Berkowitz NM, Doria-Rose NA, Morabito KM, DeKosky BJ, Gaudinski MR, Chen GL, Crank MC, Misasi J, Sullivan NJ, Douek DC, Kwong PD, Graham BS, McLellan JS, Mascola JR
Immunity (2021) 54 pp. 769-780.e6 [ Pubmed: 33823129 DOI: doi:10.1016/j.immuni.2021.03.004 ]
- Fusion glycoprotein f0 (61 kDa, Protein from Respiratory syncytial virus A2)
- Light chain of human antibody fab adi-14442 (24 kDa, Protein from Homo sapiens)
- Trimeric prefusion rsv f glycoprotein bound by three molecules of fab adi-14442. (Complex from Respiratory syncytial virus A2)
- Heavy chain of human antibody fab adi-14442 (23 kDa, Protein from Homo sapiens)
- Fab adi-14442 (Complex from Homo sapiens)
- Trimeric prefusion rsv f glycoprotein (Complex from Respiratory syncytial virus A2)
Structure of SARS-CoV-2 spike at pH 4.5
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7jwy
Q-score: 0.612
Zhou T, Tsybovsky Y, Gorman J, Rapp M, Cerutti G, Chuang GY, Katsamba PS, Sampson JM, Schon A, Bimela J, Boyington JC, Nazzari A, Olia AS, Shi W, Sastry M, Stephens T, Stuckey J, Teng IT, Wang P, Wang S, Zhang B, Friesner RA, Ho DD, Mascola JR, Shapiro L, Kwong PD
Cell Host Microbe (2020) 28 pp. 867-879.e5 [ Pubmed: 33271067 DOI: doi:10.1016/j.chom.2020.11.004 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Water (18 Da, Ligand)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 spike at ph 4.5 (423 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Li D, Edwards RJ, Manne K, Martinez DR, Schafer A, Alam SM, Wiehe K, Lu X, Parks R, Sutherland LL, McDanal C, Perez LG, Mansouri K, Gobeil SMC, Janowska K, Stalls V, Kopp M, Cai F, Lee E, Foulger A, Hernandez GE, Sanzone A, Tilahun K, Jiang C, Tse LV, Bock KW, Minai M, Nagata BM, Cronin K, Gee-Lai V, Deyton M, Barr M, Von Holle T, Macintyre AN, Stover E, Feldman J, Hauser BM, Caradonna TM, Scobey TD, Rountree W, Wang Y, Moody MA, Cain DW, DeMarco CT, Denny TN, Woods CW, Petzold EW, Schmidt AG, Teng IT, Zhou T, Kwong PD, Mascola JR, Graham BS, Moore IN, Seder R, Andersen H, Lewis MG, Montefiori DC, Sempowski GD, Baric RS, Acharya P, Haynes BF, Saunders KO
Cell (2021) 184 pp. 4203-4219.e32 [ DOI: doi:10.1016/j.cell.2021.06.021 Pubmed: 34242577 ]
Li D, Edwards RJ, Manne K, Martinez DR, Schafer A, Alam SM, Wiehe K, Lu X, Parks R, Sutherland LL, McDanal C, Perez LG, Mansouri K, Gobeil SMC, Janowska K, Stalls V, Kopp M, Cai F, Lee E, Foulger A, Hernandez GE, Sanzone A, Tilahun K, Jiang C, Tse LV, Bock KW, Minai M, Nagata BM, Cronin K, Gee-Lai V, Deyton M, Barr M, Von Holle T, Macintyre AN, Stover E, Feldman J, Hauser BM, Caradonna TM, Scobey TD, Rountree W, Wang Y, Moody MA, Cain DW, DeMarco CT, Denny TN, Woods CW, Petzold EW, Schmidt AG, Teng IT, Zhou T, Kwong PD, Mascola JR, Graham BS, Moore IN, Seder R, Andersen H, Lewis MG, Montefiori DC, Sempowski GD, Baric RS, Acharya P, Haynes BF, Saunders KO
Cell (2021) 184 pp. 4203-4219.e32 [ DOI: doi:10.1016/j.cell.2021.06.021 Pubmed: 34242577 ]