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Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8f7t
Q-score: 0.351
Olia AS, Cheng C, Zhou T, Biju A, Harris DR, Changela A, Duan H, Ivleva VB, Kong WP, Ou L, Rawi R, Tsybovsky Y, Van Wazer DJ, Corrigan AR, Gonelli CA, Lee M, McKee K, Narpala S, O'Dell S, Parchment DK, Stancofski ED, Stephens T, Tan I, Teng IT, Wang S, Wei Q, Yang Y, Yang Z, Zhang B, Novak J, Renfrow MB, Doria-Rose NA, Koup RA, McDermott AB, Gall JG, Lei QP, Mascola JR, Kwong PD
iScience (2023) 26 pp. 107403-107403 [ DOI: doi:10.1016/j.isci.2023.107403 Pubmed: 37554450 ]
- Hiv-1 consensus c env trimer with glycan covered base (Complex from Human immunodeficiency virus 1)
- Hiv-1 env gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 env gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Structure of PfFNT in apo state
Resolution: 2.29 Å
EM Method: Single-particle
Fitted PDBs: 7e26
Q-score: 0.659
Peng X, Wang N, Zhu A, Xu H, Li J, Zhou Y, Wang C, Xiao Q, Guo L, Liu F, Jia ZJ, Duan H, Hu J, Yuan W, Geng J, Yan C, Jiang X, Deng D
PLoS Biol (2021) 19 pp. e3001386-e3001386 [ DOI: doi:10.1371/journal.pbio.3001386 Pubmed: 34499638 ]
- Water (18 Da, Ligand)
- Pentameric complex of fnt (170 kDa, Complex from Plasmodium falciparum 3D7)
- Formate-nitrite transporter (34 kDa, Protein from Plasmodium falciparum 3D7)
Structure of PfFNT in complex with MMV007839
Resolution: 2.29 Å
EM Method: Single-particle
Fitted PDBs: 7e27
Q-score: 0.693
Peng X, Wang N, Zhu A, Xu H, Li J, Zhou Y, Wang C, Xiao Q, Guo L, Liu F, Jia ZJ, Duan H, Hu J, Yuan W, Geng J, Yan C, Jiang X, Deng D
PLoS Biol (2021) 19 pp. e3001386-e3001386 [ DOI: doi:10.1371/journal.pbio.3001386 Pubmed: 34499638 ]
- Pffnt (Complex from Plasmodium falciparum 3D7)
- Water (18 Da, Ligand)
- (z)-4,4,5,5,5-pentakis(fluoranyl)-1-(4-methoxy-2-oxidanyl-phenyl)-3-oxidanyl-pent-2-en-1-one (312 Da, Ligand)
- Formate-nitrite transporter (34 kDa, Protein from Plasmodium falciparum 3D7)
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- Hiv-1 env bg505 ds-sosip gp41 (Complex from Human immunodeficiency virus 1)
- Hiv-1 env bg505 ds-sosip gp120 (Complex from Human immunodeficiency virus 1)
- Hiv-1 env bg505 ds-sosip gp41 (Protein from Human immunodeficiency virus 1)
- Pgt122 heavy chain (Protein from Homo sapiens)
- Vrc03 heavy chain (Protein from Homo sapiens)
- A12v163-b.01 heavy chain (Protein from Macaca mulatta)
- A12v163-b.01 light chain (Protein from Macaca mulatta)
- Quaternary complex of hiv-1 env bg505 ds-sosip with antibodies a12v163-b.01, vrc03 and pgt122. (630 kDa, Complex)
- Vrc03 light chain (Protein from Homo sapiens)
- Pgt122 (Complex from Homo sapiens)
- Hiv-1 env bg505 ds-sosip gp120 (Protein from Human immunodeficiency virus 1)
- Vrc03 (Complex from Homo sapiens)
- A12v163-b.01 (Complex from Macaca mulatta)
- Pgt122 light chain (Protein from Homo sapiens)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6ot1
Q-score: 0.429
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- Pgt122 heavy (25 kDa, Protein from Homo sapiens)
- 0pv-b.01 (Complex from Homo sapiens)
- Vrc03 heavy (25 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Pgt122 light (22 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Vrc03 (Complex from Homo sapiens)
- Bg505 gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- 0pv-b.01 light (23 kDa, Protein from Macaca mulatta)
- Hiv-1 env bg505 ds-sosip and antibodies 0pv-b.01, vrc03 and pgt122 (Complex)
- Vrc03 light (23 kDa, Protein from Homo sapiens)
- Pgt122 (Complex from Homo sapiens)
- Envelope glycoprotein gp41 (Complex from Human immunodeficiency virus 1)
- 0pv-b.01 heavy (24 kDa, Protein from Macaca mulatta)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6mph
Q-score: 0.404
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- Pgt122 light chain (11 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Df1w-a.01 light chain (12 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Df1w-a.01 fab bound to hiv-1 env bg505 ds-sosip-vrc03 fab- pgt122 fab (630 kDa, Complex)
- Vrc03 (Complex from Homo sapiens)
- Vrc03 heavy chain (24 kDa, Protein from Homo sapiens)
- Pgt122 heavy chain (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Vrc03 light chain (11 kDa, Protein from Homo sapiens)
- Pgt122 (Complex from Homo sapiens)
- Envelope glycoprotein gp41 (Complex from Human immunodeficiency virus 1)
- Df1w-a.01 (Complex from Macaca mulatta)
- Df1w-a.01 heavy chain (12 kDa, Protein from Macaca mulatta)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6n1v
Q-score: 0.373
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- A12v163-a.01 light chain (22 kDa, Protein from Macaca mulatta)
- Envelope glycoprotein gp4 (Complex from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- A12v163-a.01 (Complex from Macaca mulatta)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Quaternary complex of hiv-1 env bg505 ds-sosip with antibodies 17d4, vrc03 and pgt122. (630 kDa, Complex)
- Vrc03 heavy chain (14 kDa, Protein from Homo sapiens)
- Vrc03 light chain (11 kDa, Protein from Homo sapiens)
- Pgt122 heavy chain (14 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- A12v163-a.01 heavy chain (23 kDa, Protein from Macaca mulatta)
- Pgt122 (Complex from Homo sapiens)
- Pgt122 light chain (11 kDa, Protein from Homo sapiens)
- Vrc03 (Complex from Homo sapiens)
- Envelope glycoprotein gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6n1w
Q-score: 0.314
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- Pgt122 light chain (11 kDa, Protein from Homo sapiens)
- Dfph-a.15 light chain (22 kDa, Protein from Macaca mulatta)
- Vrc03 heavy chain (14 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Vrc03 light chain (11 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Vrc03 (Complex from Homo sapiens)
- Dfph-a.15 heavy chain (24 kDa, Protein from Macaca mulatta)
- Pgt122 heavy chain (14 kDa, Protein from Homo sapiens)
- Dfph-a.15 (Complex from Macaca mulatta)
- Pgt122 (Complex from Homo sapiens)
- Envelope glycoprotein gp41 (Complex from Human immunodeficiency virus 1)
- Quaternary complex of hiv-1 env bg505 ds-sosip with antibodies dfph-a.15, vrc03 and pgt122. (630 kDa, Complex)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Envelope glycoprotein gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6nf2
Q-score: 0.405
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- Envelope glycoprotein gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Vrc03 (Complex from Homo sapiens)
- Vrc03 heavy chain (25 kDa, Protein from Homo sapiens)
- Pgt122 light chain (22 kDa, Protein from Homo sapiens)
- Hiv-1 env bg505 ds-sosip and antibodies 0pv-c.01, vrc03 and pgt122 (Complex)
- Pgt122 heavy chain (25 kDa, Protein from Homo sapiens)
- 0pv-c.01 (Complex from Homo sapiens)
- Vrc03 light chain (23 kDa, Protein from Homo sapiens)
- 0pv-c.01 light chain (23 kDa, Protein from Homo sapiens)
- Pgt122 (Complex from Homo sapiens)
- Envelope glycoprotein gp41 (Complex from Human immunodeficiency virus 1)
- 0pv-c.01 heavy chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 6osy
Q-score: 0.396
Kong R, Duan H, Sheng Z, Xu K, Acharya P, Chen X, Cheng C, Dingens AS, Gorman J, Sastry M, Shen CH, Zhang B, Zhou T, Chuang GY, Chao CW, Gu Y, Jafari AJ, Louder MK, O'Dell S, Rowshan AP, Viox EG, Wang Y, Choi CW, Corcoran MM, Corrigan AR, Dandey VP, Eng ET, Geng H, Foulds KE, Guo Y, Kwon YD, Lin B, Liu K, Mason RD, Nason MC, Ohr TY, Ou L, Rawi R, Sarfo EK, Schon A, Todd JP, Wang S, Wei H, Wu W, Mullikin JC, Bailer RT, Doria-Rose NA, Karlsson Hedestam GB, Scorpio DG, Overbaugh J, Bloom JD, Carragher B, Potter CS, Shapiro L, Kwong PD, Mascola JR
Cell (2019) 178 pp. 567-584.e19 [ DOI: doi:10.1016/j.cell.2019.06.030 Pubmed: 31348886 ]
- 0pv-a.01 (Complex from Homo sapiens)
- 0pv-a.01 light (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp120 (Complex from Human immunodeficiency virus 1)
- Vrc03 (Complex from Homo sapiens)
- Bg505 gp120 (53 kDa, Protein from Human immunodeficiency virus 1)
- Pgt122 heavy (25 kDa, Protein from Homo sapiens)
- 0pv-a.01 heavy (25 kDa, Protein from Homo sapiens)
- Bg505 gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Vrc03 heavy (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Pgt122 (Complex from Homo sapiens)
- Pgt122 light (22 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp41 (Complex from Human immunodeficiency virus 1)
- Vrc03 light (23 kDa, Protein from Homo sapiens)
- Hiv-1 env bg505 ds-sosip and antibodies 0pv-a.01, vrc03 and pgt122 (Complex)