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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 [ DOI: doi:10.1016/j.jmb.2024.168557 Pubmed: 38582148 ]
- Vdna (8 kDa, DNA from Human immunodeficiency virus 1)
- Integrase (32 kDa, Protein from Human immunodeficiency virus 1)
- Magnesium ion (24 Da, Ligand)
- Wild-type hiv-1 intasomes (400 kDa, Complex from Human immunodeficiency virus 1)
- (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)
- 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 [ DOI: doi:10.1016/j.jmb.2024.168557 Pubmed: 38582148 ]
- 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)
- 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)
- Hiv-1 p5-in intasomes core (Complex from Human immunodeficiency virus 1)
- (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 (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 [ DOI: doi:10.1016/j.jmb.2024.168557 Pubmed: 38582148 ]
- Integrase (32 kDa, Protein from Human immunodeficiency virus 1)
- Magnesium ion (24 Da, Ligand)
- (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(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)
- Zinc ion (65 Da, Ligand)
- 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)
- Hiv-1 wild-type conserved intasomes core (Complex from Human immunodeficiency virus 1)
Structure of tetrameric HIV-1 Strand Transfer Complex Intasome
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 5u1c
Q-score: 0.375
Passos DO, Li M, Yang R, Rebensburg SV, Ghirlando R, Jeon Y, Shkriabai N, Kvaratskhelia M, Craigie R, Lyumkis D
Science (2017) 355 pp. 89-92 [ DOI: doi:10.1126/science.aah5163 Pubmed: 28059769 ]
- Dna (11-mer) (3 kDa, DNA from Homo sapiens)
- Dna (37-mer) (11 kDa, DNA from Homo sapiens)
- Hiv-1 integrase, sso7d chimera (42 kDa, Protein from Human immunodeficiency virus 1)
- Magnesium ion (24 Da, Ligand)
- Dna (23-mer) (7 kDa, DNA from Human immunodeficiency virus 1)
- Complex formed by a tetrameric assembly of sso7d-fusion hiv-1 integrase with the product of dna strand transfer (228 kDa, Complex from Human immunodeficiency virus 1)
- Zinc ion (65 Da, Ligand)
Structure of higher-order HIV-1 strand transfer complex intasome
Passos DO, Li M, Yang R, Rebensburg SV, Ghirlando R, Jeon Y, Shkriabai N, Kvaratskhelia M, Craigie R, Lyumkis D
Science (2017) 355 pp. 89-92 [ DOI: doi:10.1126/science.aah5163 Pubmed: 28059769 ]
- Complex formed by a higher-order assembly of sso7d-fusion hiv-1 integrase with with in-binding domain of ledgf/p75, and the product of dna strand transfer (500 kDa, Complex from Human immunodeficiency virus 1)
- Integrase binding domain of ledgf/p75 (Protein from Homo sapiens)
- Hiv-1 integrase, sso7d chimera (Protein from Human immunodeficiency virus 1)
- Dna (23-mer) (DNA from Human immunodeficiency virus 1)
- Dna (11-mer) (DNA from Homo sapiens)
- Dna (37-mer) (DNA from Homo sapiens)