CryoEM structure of Apo form of catalytic domain of human HMG-CoA reductase
Resolution: 2.06 Å
EM Method: Single-particle
Fitted PDBs: 8s6b
Q-score: 0.622
To Be Published
- 3-hydroxy-3-methylglutaryl-coenzyme a reductase (45 kDa, Protein from Homo sapiens)
- Human hmgcoa catalytic domain reductase (240 kDa, Complex from Homo sapiens)
The Cryo-EM structure of recombinantly expressed apo hUGDH
Resolution: 2.06 Å
EM Method: Single-particle
Fitted PDBs: 9dgz
Q-score: 0.747
O'Brien JH, Kadirvelraj R, Tseng PS, Ross-Kemppinen N, Crich D, Walsh Jr RM, Wood ZW
To Be Published
- Water (18 Da, Ligand)
- Udp-glucose 6-dehydrogenase (55 kDa, Protein from Homo sapiens)
- Unliganded human udp-glucose dehydrogenase (55 kDa, Complex from Homo sapiens)
Cryo-EM structure of the I923V MDA5-dsRNA filament without nucleotide
Resolution: 3.35 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f0j
Q-score: 0.446
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Rna (5'-uccaugcgcaugacg-3') (4 kDa, RNA from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Rna (5'-cgucaugcgcaugga-3') (4 kDa, RNA from Mus musculus)
- Mouse mda5 i923v (Complex from Mus musculus)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Mouse mda5 i923v in complex with double stranded rna (28 MDa, Complex)
Cryo-EM structure of the I923V MDA5-dsRNA filament with ADP-AlF4 bound and 81-degree helical twist
Resolution: 3.67 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f1u
Q-score: 0.335
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Rna (5'-r(p*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*ap*u)-3') (4 kDa, RNA from Mus musculus)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*ap*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*g)-3') (4 kDa, RNA from Mus musculus)
- Mouse mda5 i923v (Complex from Mus musculus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Mouse mda5 i923v in complex with double stranded rna (28 MDa, Complex)
Cryo-EM structure of the I923V MDA5-dsRNA filament with ADP-AlF4 bound and 88-degree helical twist
Resolution: 4.13 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f20
Q-score: 0.297
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Rna (5'-r(p*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*gp*ap*c)-3') (4 kDa, RNA from Mus musculus)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mouse mda5 i923v (Complex from Mus musculus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Rna (5'-r(p*gp*up*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*a)-3') (4 kDa, RNA from Mus musculus)
- Mouse mda5 i923v in complex with double stranded rna (28 MDa, Complex)
Cryo-EM structure of the I923V MDA5-dsRNA filament with ADP-AlF4 bound and 73-degree helical twist
Resolution: 3.86 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f2l
Q-score: 0.385
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mouse mda5 i923v (Complex from Mus musculus)
- Adenosine-5'-diphosphate (427 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 Mus musculus)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein 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 Mus musculus)
- Mouse mda5 i923v in complex with double stranded rna (28 MDa, Complex)
Cryo-EM structure of the I923V MDA5-dsRNA filament in complex with ATP
Resolution: 4.21 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f2w
Q-score: 0.32
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rna (5'-r(p*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*ap*u)-3') (4 kDa, RNA from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Rna (5'-r(p*ap*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*g)-3') (4 kDa, RNA from Mus musculus)
- Mouse mda5 i923v (Complex from Mus musculus)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Mouse mda5 i923v in complex with double stranded rna (28 MDa, Complex)
Cryo-EM structure of the A946T MDA5-dsRNA filament
Resolution: 3.97 Å
EM Method: Helical reconstruction
Fitted PDBs: 9f3p
Q-score: 0.348
Singh R, Herrero del Valle A, Joiner JD, Zwaagstra M, Ferguson BJ, van Kuppeveld FJM, Modis Y
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.03.616466 ]
- Double stranded rna (Complex from Mus musculus)
- Rna (5'-r(p*up*cp*up*cp*cp*up*cp*gp*gp*cp*up*up*gp*ap*c)-3') (4 kDa, RNA from Mus musculus)
- Mouse mda5 a946t (Complex from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Mouse mda5 a946t in complex with double stranded rna (28 MDa, Complex)
- Interferon-induced helicase c domain-containing protein 1 (116 kDa, Protein from Mus musculus)
- Rna (5'-r(p*gp*up*cp*ap*ap*gp*cp*cp*gp*ap*gp*gp*ap*gp*a)-3') (4 kDa, RNA from Mus musculus)
Photosynthetic LH2-LH1 complex from the purple bacterium Halorhodospira halophila
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8z81
Q-score: 0.682
Tani K, Nagashima KVP, Kojima R, Kondo M, Kanno R, Satoh I, Kawakami M, Hiwatashi N, Nakata K, Nagashima S, Inoue K, Isawa Y, Morishita R, Takaichi S, Purba ER, Hall M, Yu LJ, Madigan MT, Mizoguchi A, Humbel BM, Kimura Y, Nagasawa Y, Dewa T, Wang-Otomo ZY
Nat Commun (2025) 16 pp. 1410-1410 [ DOI: doi:10.1038/s41467-024-55811-9 Pubmed: 39915441 ]
- Bacteriochlorophyll a (911 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Antenna complex, alpha/beta subunit (7 kDa, Protein from Halorhodospira halophila)
- Photosynthetic lh2-lh1 complex from the purple phototrophic bacterium halorhodospira halophila (Complex from Halorhodospira halophila)
- Antenna complex, alpha/beta subunit (7 kDa, Protein from Halorhodospira halophila)
- Antenna complex, alpha/beta subunit (7 kDa, Protein from Halorhodospira halophila)
- Antenna complex, alpha/beta subunit (6 kDa, Protein from Halorhodospira halophila)
- Antenna complex, alpha/beta subunit (7 kDa, Protein from Halorhodospira halophila)
- Spirilloxanthin (596 Da, Ligand)
- Antenna complex, alpha/beta subunit (8 kDa, Protein from Halorhodospira halophila)
- Lh2-lh1 complex of halorhodospira halophila (Complex from Halorhodospira halophila)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
CryoEM structure of GroEL-GroES-ADP.AlF3-Rubisco, class II.
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 8baa
Q-score: 0.273
Gardner S, Lukyanova N, Darrow MC, Thalassinos K, Saibil HR
To Be Published
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Aluminum fluoride (83 Da, Ligand)
- Ribulose bisphosphate carboxylase (50 kDa, Protein from Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIMB 8255 / S1))
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli (strain K12))
- Potassium ion (39 Da, Ligand)
- Groel-groes-adp.alf3-rubisco (802 kDa, Complex from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli (strain K12))