MicroED structure of bovine liver catalase with missing cone solved by suspended drop
Resolution: 4.0 Å
EM Method: Electron Crystallography
Fitted PDBs: 9bdj
Q-score: 0.483
Gillman C, Bu G, Danelius E, Hattne J, Nannenga BL, Gonen T
J Struct Biol X (2024) 9 pp. 100102-100102 [ DOI: doi:10.1016/j.yjsbx.2024.100102 Pubmed: 38962493 ]
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Bovine liver catalase (Complex from Bos taurus)
- Catalase (59 kDa, Protein from Bos taurus)
- Protoporphyrin ix containing fe (616 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand bound conformation
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8d2s
Q-score: 0.543
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand bound conformation at an average resolution of 2.9 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Sodium ion (22 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand-free conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d2t
Q-score: 0.481
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand-free conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Water (18 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand 1A conformation
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8d2u
Q-score: 0.489
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Sodium ion (22 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 1a conformation at an average resolution of 3.3 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Water (18 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand 1B conformation
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8d2v
Q-score: 0.408
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Sodium ion (22 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 1b conformation at an average resolution of 4.1 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
Zebrafish MFSD2A isoform B in inward open ligand 2B conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d2w
Q-score: 0.482
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 2b conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand 3C conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d2x
Q-score: 0.478
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 3c conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
Catalase solved at 3.2 Angstrom resolution by MicroED
Resolution: 3.2 Å
EM Method: Electron Crystallography
Fitted PDBs: 3j7b
Q-score: 0.334
Nannenga BL, Shi D, Hattne J, Reyes FE, Gonen T
eLife (2014) 3 pp. e03600-e03600 [ DOI: doi:10.7554/eLife.03600 Pubmed: 25303172 ]
- Catalase (240 kDa, Protein from Bos taurus)
- Catalase (240 kDa, Sample)
3D EM Reconstruction of the AKAP18-PKA Complex in a Bent Conformation
Resolution: 35.0 Å
EM Method: Single-particle
Fitted PDBs: 3j4q
Q-score: 0.05
Smith FD, Reichow SL, Esseltine JL, Shi D, Langeberg LK, Scott JD, Gonen T
eLife (2013) 2 pp. e01319-e01319 [ DOI: doi:10.7554/eLife.01319 Pubmed: 24192038 ]
- Akap18-pka complex in bent conformation (240 kDa, Sample)
- A-protein kinase catalytic subunit (40 kDa, Protein from Mus musculus)
- A-protein kinase regulatory subunit ii alpha (45 kDa, Protein from Mus musculus)
- A-kinase anchoring protein 18 (40 kDa, Protein from Homo sapiens)
3D EM Reconstruction of the AKAP18-PKA Complex in a Linear Conformation
Resolution: 35.0 Å
EM Method: Single-particle
Fitted PDBs: 3j4r
Q-score: 0.042
Smith FD, Reichow SL, Esseltine JL, Shi D, Langeberg LK, Scott JD, Gonen T
eLife (2013) 2 pp. e01319-e01319 [ DOI: doi:10.7554/eLife.01319 Pubmed: 24192038 ]
- A-protein kinase catalytic subunit (40 kDa, Protein from Mus musculus)
- A-protein kinase regulatory subunit ii alpha (45 kDa, Protein from Mus musculus)
- Akap18-pka complex in linear conformation (240 kDa, Sample)
- A-kinase anchoring protein 18 (40 kDa, Protein from Homo sapiens)