MVV cleaved synaptic complex (CSC) intasome at 4.5 A resolution (re-refined)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7zpp
Q-score: 0.097
Ballandras-Colas A, Maskell DP, Serrao E, Locke J, Swuec P, Jonsson SR, Kotecha A, Cook NJ, Pye VE, Taylor IA, Andresdottir V, Engelman AN, Costa A, Cherepanov P
Science (2017) 355 pp. 93-95 [ Pubmed: 28059770 DOI: doi:10.1126/science.aah7002 ]
- Vdna, non-transferred strand (6 kDa, DNA from Visna lentivirus (strain 1514))
- Vdna, transferred strand (5 kDa, DNA from Visna-maedi virus)
- Integrase (32 kDa, Protein from Visna/maedi virus EV1 KV1772)
- Vdna (Complex from Visna-maedi virus)
- Maedi-visna virus (mvv) intasome (542 kDa, Complex)
- Intergrase (Complex from Visna/maedi virus EV1 KV1772)
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 ]
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Dna ev273 (8 kDa, DNA from synthetic construct)
- Dna ev272 (8 kDa, DNA from synthetic construct)
- Mvv cleaved synaptic complex intasome (480 kDa, Complex from Streptomyces griseus)
- Integrase (32 kDa, Protein from Visna/maedi virus EV1 KV1772)
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 [ DOI: doi:10.1038/s41467-021-25284-1 Pubmed: 34404793 ]
- 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)
- Integrase (33 kDa, Protein from Simian T-lymphotropic virus 1)
- Zinc ion (65 Da, Ligand)
- Complex of stlv-1 marb43 integrase with nascent viral dna, the human pp2a b56 subunit and the drug inhibitor xz450 (331 kDa, Complex)
- Magnesium ion (24 Da, Ligand)
- 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)
- Water (18 Da, Ligand)
- 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)
- 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)
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 [ DOI: doi:10.1038/s41467-021-25284-1 Pubmed: 34404793 ]
- 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)
- Complex of stlv-1 marb43 integrase with nascent viral dna, the human pp2a b56 subunit and the inhibitor raltegravir (331 kDa, Complex)
- Integrase (33 kDa, Protein from Simian T-lymphotropic virus 1)
- 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)
- 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)
- 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)
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 [ DOI: doi:10.1038/s41467-021-25284-1 Pubmed: 34404793 ]
- 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)
- 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 drug inhibitor bictegravir (331 kDa, Complex)
- Integrase (Complex from Simian T-lymphotropic virus 1)
- Zinc ion (65 Da, Ligand)
- Bictegravir (449 Da, Ligand)
- Pc4 and sfrs1-interacting protein,serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (80 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna (Complex from Simian T-lymphotropic virus 1)
- Pc4 and sfrs1-interacting protein,serine/threonine-protein phosphatase 2a 56 kda regulatory subunit gamma isoform (Complex from Homo sapiens)
- 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)
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 ]
- Dna (Complex from Pyrobaculum filamentous virus 1)
- Histone h4 (11 kDa, Protein 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)
- Human dna (Complex from Homo sapiens)
- Nucleosome core particle bound by pfv intasome post in the post catalytic state (399 kDa, Complex)
- Integrase (Complex from Human spumaretrovirus)
- Dna (108-mer) (33 kDa, DNA from Homo sapiens)
- Dna (53-mer) (16 kDa, DNA from Homo sapiens)
- Dna (33-mer) (10 kDa, DNA from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Homo sapiens)
- Dna (128-mer) (39 kDa, DNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Integrase (44 kDa, Protein from Human spumaretrovirus)
- Histone h2b type 1-c/e/f/g/i (13 kDa, Protein from Homo sapiens)
- Nucleosome (Complex from Homo sapiens)
Cryo-EM reconstruction of the maedi-visna virus (MVV) strand transfer complex
Resolution: 8.2 Å
EM Method: Single-particle
Fitted PDBs: 5m0r
Q-score: 0.098
Ballandras-Colas A, Maskell DP, Serrao E, Locke J, Swuec P, Jonsson SR, Kotecha A, Cook NJ, Pye VE, Taylor IA, Andresdottir V, Engelman AN, Costa A, Cherepanov P
Science (2017) 355 pp. 93-95 [ Pubmed: 28059770 DOI: doi:10.1126/science.aah7002 ]
- Nucleic acid (Complex from Visna lentivirus (strain 1514))
- Tdna (7 kDa, DNA from synthetic construct)
- Integrase (32 kDa, Protein from Maedi visna virus (strain KV1772))
- Vdna-tdna, transferred strand, joined to a model tdna (15 kDa, DNA from Visna lentivirus (strain 1514))
- Mvv strand transfer complex (Complex)
- Intergrase (Complex from Maedi visna virus (strain KV1772))
- Vdna, non-transfered strand (6 kDa, DNA from Visna lentivirus (strain 1514))
- Nucleic acid (Complex from synthetic construct)