Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8w09
Q-score: 0.461
Li M, Yang R, Chen X, Wang H, Ghirlando R, Dimitriadis EK, Craigie R
J Mol Biol (2024) 436 pp. 168557-168557 [ Pubmed: 38582148 DOI: doi:10.1016/j.jmb.2024.168557 ]
- (4r,12as)-n-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2h-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide (419 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Integrase (32 kDa, Protein from Human immunodeficiency virus 1)
- Magnesium ion (24 Da, Ligand)
- Vdna (8 kDa, DNA from Human immunodeficiency virus 1)
- Wild-type hiv-1 intasomes (400 kDa, Complex from Human immunodeficiency virus 1)
- Vdna (27 kDa, DNA from Human immunodeficiency virus 1)
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 8w2r
Q-score: 0.432
Li M, Yang R, Chen X, Wang H, Ghirlando R, Dimitriadis EK, Craigie R
J Mol Biol (2024) 436 pp. 168557-168557 [ Pubmed: 38582148 DOI: doi:10.1016/j.jmb.2024.168557 ]
- (4r,12as)-n-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2h-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide (419 Da, Ligand)
- Dna (5'-d(*ap*cp*tp*gp*cp*tp*ap*gp*ap*gp*ap*tp*tp*tp*tp*cp*cp*cp*g)-3') (8 kDa, DNA from synthetic construct)
- Zinc ion (65 Da, Ligand)
- Hiv-1 p5-in intasomes core (Complex from Human immunodeficiency virus 1)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(p*cp*gp*gp*gp*ap*ap*ap*ap*tp*cp*tp*cp*tp*ap*gp*cp*a)-3') (7 kDa, DNA from synthetic construct)
- Integrase (39 kDa, Protein from Human immunodeficiency virus 1)
HIV-1 intasome core assembled with wild-type integrase, 1F
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 8w34
Q-score: 0.236
Li M, Yang R, Chen X, Wang H, Ghirlando R, Dimitriadis EK, Craigie R
J Mol Biol (2024) 436 pp. 168557-168557 [ Pubmed: 38582148 DOI: doi:10.1016/j.jmb.2024.168557 ]
- Integrase (32 kDa, Protein from Human immunodeficiency virus 1)
- Hiv-1 wild-type conserved intasomes core (Complex from Human immunodeficiency virus 1)
- Dna (5'-d(*ap*cp*tp*gp*cp*tp*ap*gp*ap*gp*ap*tp*tp*tp*tp*cp*cp*ap*c)-3') (27 kDa, DNA from synthetic construct)
- (4r,12as)-n-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2h-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide (419 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (5'-d(p*gp*tp*gp*gp*ap*ap*ap*ap*tp*cp*tp*cp*tp*ap*gp*cp*a)-3') (8 kDa, DNA from synthetic construct)
CryoEM structure of HIV-1 cleaved synaptic complex (CSC) intasome
Resolution: 4.67 Å
EM Method: Single-particle
Fitted PDBs: 6u8q
Q-score: 0.176
Li M, Chen X, Wang H, Jurado KA, Engelman AN, Craigie R
J Mol Biol (2020) 432 pp. 2055-2066 [ Pubmed: 32061936 DOI: doi:10.1016/j.jmb.2020.01.040 ]
- Integrase (39 kDa, Protein from Human immunodeficiency virus 1)
- Dna (27-mer) (8 kDa, DNA from Escherichia coli)
- (4r,12as)-n-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2h-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide (419 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dna (25-mer) (7 kDa, DNA from Escherichia coli)
- Hiv-1 csc intasome (Complex from Human immunodeficiency virus 1)
CryoEM structure of HIV-1 conserved Intasome Core
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6vdk
Q-score: 0.281
Li M, Chen X, Wang H, Jurado KA, Engelman AN, Craigie R
J Mol Biol (2020) 432 pp. 2055-2066 [ Pubmed: 32061936 DOI: doi:10.1016/j.jmb.2020.01.040 ]
- Integrase (39 kDa, Protein from Human immunodeficiency virus 1)
- Dna (27-mer) (8 kDa, DNA from Escherichia coli)
- (4r,12as)-n-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2h-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide (419 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dna (25-mer) (7 kDa, DNA from Escherichia coli)
- Hiv-1 conserved intasome core (Complex from Human immunodeficiency virus 1)
cryoEM structure of the truncated HIV-1 Vif/CBFbeta/A3F complex
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6nil
Q-score: 0.383
Hu Y, Desimmie BA, Nguyen HC, Ziegler SJ, Cheng TC, Chen J, Wang J, Wang H, Zhang K, Pathak VK, Xiong Y
Nat Struct Mol Biol (2019) 26 pp. 1176-1183 [ DOI: doi:10.1038/s41594-019-0343-6 Pubmed: 31792451 ]
- Truncated vif/cbfbeta/a3fctd complex (17 kDa, Complex from Human immunodeficiency virus 1)
- Alpha domain truncated hiv-1 vif (Complex from Human immunodeficiency virus 1)
- Dna dc->du-editing enzyme apobec-3f (24 kDa, Protein from Homo sapiens)
- Virion infectivity factor (16 kDa, Protein from Human immunodeficiency virus 1)
- Core-binding factor subunit beta (17 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 6xhis tagged ha3fctd-40aa-hcbfbeta fusion (Complex from Homo sapiens)