MVV cleaved synaptic complex (CSC) intasome at 3.4 A resolution
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 7u32
Q-score: 0.256
Ballandras-Colas A, Chivukula V, Gruszka DT, Shan Z, Singh PK, Pye VE, McLean RK, Bedwell GJ, Li W, Nans A, Cook NJ, Fadel HJ, Poeschla EM, Griffiths DJ, Vargas J, Taylor IA, Lyumkis D, Yardimci H, Engelman AN, Cherepanov P
Nat Commun (2022) 13 pp. 2416-2416 [ Pubmed: 35504909 DOI: doi:10.1038/s41467-022-29928-8 ]
- Dna ev273 (8 kDa, DNA from synthetic construct)
- Mvv cleaved synaptic complex intasome (480 kDa, Complex from Streptomyces griseus)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Integrase (32 kDa, Protein from Visna/maedi virus EV1 KV1772)
- Dna ev272 (8 kDa, DNA from synthetic construct)
Structure of the STLV intasome:B56 complex bound to the strand-transfer inhibitor XZ450
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7ouf
Q-score: 0.431
Barski MS, Vanzo T, Zhao XZ, Smith SJ, Ballandras-Colas A, Cronin NB, Pye VE, Hughes SH, Burke Jr TR, Cherepanov P, Maertens GN
Nat Commun (2021) 12 pp. 4996-4996 [ Pubmed: 34404793 DOI: doi:10.1038/s41467-021-25284-1 ]
- Complex of stlv-1 marb43 integrase with nascent viral dna, the human pp2a b56 subunit and the drug inhibitor xz450 (331 kDa, Complex)
- Isoform 3 of pc4 and sfrs1-interacting protein,isoform gamma-1 of serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (80 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Dna (5'-d(*gp*ap*gp*ap*gp*ap*ap*gp*cp*gp*cp*cp*ap*ap*ap*cp*ap*cp*a)-3') (8 kDa, DNA from Simian T-lymphotropic virus 1)
- 4-azanyl-~{n}-[[2,4-bis(fluoranyl)phenyl]methyl]-6-[3-(dimethylamino)-3-oxidanylidene-propyl]-1-oxidanyl-2-oxidanylidene-1,8-naphthyridine-3-carboxamide (445 Da, Ligand)
- Dna (5'-d(*ap*cp*tp*gp*tp*gp*tp*tp*tp*gp*gp*cp*gp*cp*tp*tp*cp*tp*cp*tp*c)-3') (9 kDa, DNA from Simian T-lymphotropic virus 1)
- Zinc ion (65 Da, Ligand)
- Integrase (33 kDa, Protein from Simian T-lymphotropic virus 1)
STLV-1 intasome:B56 in complex with the strand-transfer inhibitor raltegravir
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7oug
Q-score: 0.419
Barski MS, Vanzo T, Zhao XZ, Smith SJ, Ballandras-Colas A, Cronin NB, Pye VE, Hughes SH, Burke Jr TR, Cherepanov P, Maertens GN
Nat Commun (2021) 12 pp. 4996-4996 [ Pubmed: 34404793 DOI: doi:10.1038/s41467-021-25284-1 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Dna (5'-d(*gp*ap*gp*ap*gp*ap*ap*gp*cp*gp*cp*cp*ap*ap*ap*cp*ap*cp*a)-3') (8 kDa, DNA from Simian T-lymphotropic virus 1)
- Dna (5'-d(*ap*cp*tp*gp*tp*gp*tp*tp*tp*gp*gp*cp*gp*cp*tp*tp*cp*tp*cp*tp*c)-3') (9 kDa, DNA from Simian T-lymphotropic virus 1)
- Isoform 3 of pc4 and sfrs1-interacting protein,isoform gamma-2 of serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (80 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- N-(4-fluorobenzyl)-5-hydroxy-1-methyl-2-(1-methyl-1-{[(5-methyl-1,3,4-oxadiazol-2-yl)carbonyl]amino}ethyl)-6-oxo-1,6-di hydropyrimidine-4-carboxamide (444 Da, Ligand)
- Integrase (33 kDa, Protein from Simian T-lymphotropic virus 1)
- Complex of stlv-1 marb43 integrase with nascent viral dna, the human pp2a b56 subunit and the inhibitor raltegravir (331 kDa, Complex)
Structure of the STLV intasome:B56 complex bound to the strand-transfer inhibitor bictegravir
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7ouh
Q-score: 0.354
Barski MS, Vanzo T, Zhao XZ, Smith SJ, Ballandras-Colas A, Cronin NB, Pye VE, Hughes SH, Burke Jr TR, Cherepanov P, Maertens GN
Nat Commun (2021) 12 pp. 4996-4996 [ Pubmed: 34404793 DOI: doi:10.1038/s41467-021-25284-1 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Dna (5'-d(*gp*ap*gp*ap*gp*ap*ap*gp*cp*gp*cp*cp*ap*ap*ap*cp*ap*cp*a)-3') (8 kDa, DNA from Simian T-lymphotropic virus 1)
- Complex of stlv-1 marb43 integrase with nascent viral dna, the human pp2a b56 subunit and the drug inhibitor bictegravir (331 kDa, Complex)
- Pc4 and sfrs1-interacting protein,serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (Complex from Homo sapiens)
- Dna (5'-d(*ap*cp*tp*gp*tp*gp*tp*tp*tp*gp*gp*cp*gp*cp*tp*tp*cp*tp*cp*tp*c)-3') (9 kDa, DNA from Simian T-lymphotropic virus 1)
- Zinc ion (65 Da, Ligand)
- Dna (Complex from Simian T-lymphotropic virus 1)
- Bictegravir (449 Da, Ligand)
- Integrase (Complex from Simian T-lymphotropic virus 1)
- Pc4 and sfrs1-interacting protein,serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (80 kDa, Protein from Homo sapiens)
- Integrase (33 kDa, Protein from Simian T-lymphotropic virus 1)
PFV intasome - nucleosome strand transfer complex
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6rny
Q-score: 0.349
Wilson MD, Renault L, Maskell DP, Ghoneim M, Pye VE, Nans A, Rueda DS, Cherepanov P, Costa A
Nat Commun (2019) 10 pp. 4189-4189 [ DOI: doi:10.1038/s41467-019-12007-w Pubmed: 31519882 ]
- Human dna (Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Homo sapiens)
- Dna (128-mer) (39 kDa, DNA from Homo sapiens)
- Dna (108-mer) (33 kDa, DNA from Homo sapiens)
- Nucleosome (Complex from Homo sapiens)
- Dna (53-mer) (16 kDa, DNA from Homo sapiens)
- Dna (5'-d(*ap*tp*tp*gp*tp*cp*ap*tp*gp*gp*ap*ap*tp*tp*tp*cp*gp*c)-3') (5 kDa, DNA from Pyrobaculum filamentous virus 1)
- Dna (33-mer) (10 kDa, DNA from Homo sapiens)
- Integrase (Complex from Human spumaretrovirus)
- Dna (Complex from Pyrobaculum filamentous virus 1)
- Nucleosome core particle bound by pfv intasome post in the post catalytic state (399 kDa, Complex)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Integrase (44 kDa, Protein from Human spumaretrovirus)
- Histone h3.3 (15 kDa, Protein from Homo sapiens)