CryoEM structure of disease related M854K MDA5-dsRNA filament in complex with ATP
Resolution: 2.8 Å
EM Method: Helical reconstruction
Fitted PDBs: 7bkp
Q-score: 0.584
Yu Q, Herrero Del Valle A, Singh R, Modis Y
Nat Commun (2021) 12 pp. 6668-6668 [ Pubmed: 34795277 DOI: doi:10.1038/s41467-021-27062-5 ]
- M854k mda5-dsrna filament in complex with atp (1 MDa, Complex)
- Rna (5'-r(p*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*ap*g)-3') (4 kDa, RNA from Pseudomonas virus phi6)
- Rna (Complex from Pseudomonas virus phi6)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rna (5'-r(p*cp*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*g)-3') (4 kDa, RNA from Pseudomonas virus phi6)
- Zinc ion (65 Da, Ligand)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Interferon-induced helicase c domain-containing protein (Complex from Mus musculus)
MDA5 CARDs-MAVS CARD polyUb complex
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7dni
Q-score: 0.497
Song B, Chen Y, Liu X, Yuan F, Tan EYJ, Lei Y, Song N, Han Y, Pascal BD, Griffin PR, Luo C, Wu B, Luo D, Zheng J
Immunity (2021) 54 pp. 2218- [ Pubmed: 34644557 DOI: doi:10.1016/j.immuni.2021.09.008 ]
- Mitochondrial antiviral-signaling protein (11 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Interferon-induced helicase c domain-containing protein 1 (23 kDa, Protein from Homo sapiens)
- K63-polyub bound mda5cards-mavscard complex (Complex from Homo sapiens)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7dnj
Q-score: 0.48
Song B, Chen Y, Liu X, Yuan F, Tan EYJ, Lei Y, Song N, Han Y, Pascal BD, Griffin PR, Luo C, Wu B, Luo D, Zheng J
Immunity (2021) 54 pp. 2218- [ Pubmed: 34644557 DOI: doi:10.1016/j.immuni.2021.09.008 ]
- Mda5 cards (Complex)
- K63polyub bound mda5 cards complex (Complex from Homo sapiens)
- Interferon-induced helicase c domain-containing protein 1 (23 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- K63polyub (Complex from Homo sapiens)
Cryo-EM structure of MDA5-dsRNA in complex with TRIM65 PSpry domain (Monomer)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7jl0
Q-score: 0.395
Kato K, Ahmad S, Zhu Z, Young JM, Mu X, Park S, Malik HS, Hur S
Mol Cell (2021) 81 pp. 599-613.e8 [ DOI: doi:10.1016/j.molcel.2020.11.047 Pubmed: 33373584 ]
- Interferon-induced helicase c domain-containing protein 1 (84 kDa, Protein from Homo sapiens)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Tripartite motif-containing protein 65 (21 kDa, Protein from Homo sapiens)
- Rna (5'-r(p*up*cp*ap*gp*up*cp*ap*gp*up*cp*ap*gp*up*c)-3') (4 kDa, RNA from Homo sapiens)
- Ternary complex of mda5:dsrna:trim65 (Complex from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*gp*ap*cp*up*gp*ap*cp*up*gp*ap*cp*up*gp*a)-3') (4 kDa, RNA from Homo sapiens)
Cryo-EM structure of MDA5-dsRNA filament in complex with TRIM65 PSpry domain (Trimer)
Resolution: 4.3 Å
EM Method: Helical reconstruction
Fitted PDBs: 7jl2
Q-score: 0.362
Kato K, Ahmad S, Zhu Z, Young JM, Mu X, Park S, Malik HS, Hur S
Mol Cell (2021) 81 pp. 599-613.e8 [ DOI: doi:10.1016/j.molcel.2020.11.047 Pubmed: 33373584 ]
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Rna (44-mer) (13 kDa, RNA from Homo sapiens)
- Tripartite motif-containing protein 65 (21 kDa, Protein from Homo sapiens)
- Rna (44-mer) (14 kDa, RNA from Homo sapiens)
- Interferon-induced helicase c domain-containing protein 1 (84 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Ternary complex of mda5-dsrna-trim65 (Complex from Homo sapiens)
CryoEM structure of the MDA5-dsRNA filament in complex with AMPPNP
Resolution: 4.06 Å
EM Method: Helical reconstruction
Fitted PDBs: 6gjz
Q-score: 0.317
Mol Cell (2018) 72 pp. 999-1012.e6 [ Pubmed: 30449722 DOI: doi:10.1016/j.molcel.2018.10.012 ]
- Mda5-dsrna helical filament in complex with amppnp (2 MDa, Complex)
- Mda5 bound to amppnp (Complex from Mus musculus)
- Rna (5'-r(p*cp*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Interferon-induced helicase c domain-containing protein 1 (114 kDa, Protein from Mus musculus)
- Rna (5'-r(p*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*ap*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Double-stranded rna from bacteriophage phi6 (Complex from Pseudomonas savastanoi pv. phaseolicola)
CryoEM structure of the MDA5-dsRNA filament in complex with ADP-AlF4
Resolution: 4.06 Å
EM Method: Helical reconstruction
Fitted PDBs: 6gkh
Q-score: 0.353
Mol Cell (2018) 72 pp. 999-1012.e6 [ Pubmed: 30449722 DOI: doi:10.1016/j.molcel.2018.10.012 ]
- Mda5 bound to adp-alf4 (Complex from Mus musculus)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mda5-dsrna helical filament in complex with adp-alf4 (2 MDa, Complex)
- Interferon-induced helicase c domain-containing protein 1 (114 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Double-stranded rna from bacteriophage phi6 (Complex from Pseudomonas savastanoi pv. phaseolicola)
- Rna (5'-r(p*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*gp*ap*c)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Rna (5'-r(p*gp*up*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*a)-3') (4 kDa, RNA from Pseudomonas phage phi6)
CryoEM structure of the MDA5-dsRNA filament in complex with ATP (10 mM)
Resolution: 3.87 Å
EM Method: Helical reconstruction
Fitted PDBs: 6gkm
Q-score: 0.394
Mol Cell (2018) 72 pp. 999-1012.e6 [ Pubmed: 30449722 DOI: doi:10.1016/j.molcel.2018.10.012 ]
- Mda5-dsrna helical filament in complex with atp (2 MDa, Complex)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rna (5'-r(p*cp*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Mda5 bound to atp (Complex from Mus musculus)
- Interferon-induced helicase c domain-containing protein 1 (114 kDa, Protein from Mus musculus)
- Double-stranded rna from bacteriophage phi6 (Complex from Pseudomonas savastanoi pv. phaseolicola)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*ap*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)
CryoEM structure of the MDA5-dsRNA filament with 89 degree twist and without nucleotide
Resolution: 4.02 Å
EM Method: Helical reconstruction
Fitted PDBs: 6h61
Q-score: 0.318
Mol Cell (2018) 72 pp. 999-1012.e6 [ Pubmed: 30449722 DOI: doi:10.1016/j.molcel.2018.10.012 ]
- Mda5 bound to atp (Complex from Mus musculus)
- Interferon-induced helicase c domain-containing protein 1 (114 kDa, Protein from Mus musculus)
- Rna (5'-r(p*cp*gp*up*cp*ap*up*gp*cp*gp*cp*ap*up*gp*gp*a)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Double-stranded rna from bacteriophage phi6 (Complex from Pseudomonas savastanoi pv. phaseolicola)
- Zinc ion (65 Da, Ligand)
- Mda5-dsrna helical filament without nucleotide (2 MDa, Complex)
- Rna (5'-r(p*up*cp*cp*ap*up*gp*cp*gp*cp*ap*up*gp*ap*cp*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)
CryoEM structure of the MDA5-dsRNA filament with 93 degree twist and without nucleotide
Resolution: 4.16 Å
EM Method: Helical reconstruction
Fitted PDBs: 6h66
Q-score: 0.332
Mol Cell (2018) 72 pp. 999-1012.e6 [ Pubmed: 30449722 DOI: doi:10.1016/j.molcel.2018.10.012 ]
- Mda5 (ifih1) (Complex from Mus musculus)
- Double-stranded rna from bacteriophage phi6, generated by n vitro translation (Complex from Pseudomonas savastanoi pv. phaseolicola)
- Interferon-induced helicase c domain-containing protein 1 (114 kDa, Protein from Mus musculus)
- Rna (5'-r(p*cp*gp*up*cp*ap*up*gp*cp*gp*cp*ap*up*gp*gp*a)-3') (4 kDa, RNA from Pseudomonas phage phi6)
- Mda5-dsrna helical filament without nucleotide (2 MDa, Complex)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*up*cp*cp*ap*up*gp*cp*gp*cp*ap*up*gp*ap*cp*g)-3') (4 kDa, RNA from Pseudomonas phage phi6)