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 ]
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Water (18 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)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Sodium ion (22 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand-free conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d2t
Q-score: 0.481
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand-free conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Water (18 Da, Ligand)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand 1A conformation
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8d2u
Q-score: 0.489
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Sodium ion (22 Da, Ligand)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 1a conformation at an average resolution of 3.3 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Water (18 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Dodecyl-beta-d-maltoside (510 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 ]
- 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 1b conformation at an average resolution of 4.1 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Sodium ion (22 Da, Ligand)
Zebrafish MFSD2A isoform B in inward open ligand 2B conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8d2w
Q-score: 0.482
Nguyen C, Lei HT, Lai LTF, Gallenito MJ, Mu X, Matthies D, Gonen T
Nat Commun (2023) 14 pp. 2571-2571 [ Pubmed: 37156797 DOI: doi:10.1038/s41467-023-37702-7 ]
- Fab heavy chain (20 kDa, Protein from Mus musculus)
- Single-particle cryo-em map of mfsd2a isoform b from zebrafish with a fab in the inward open ligand 2b conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Water (18 Da, Ligand)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{z},12~{z},15~{z})-octadeca-9,12,15-trienoate (518 Da, Ligand)
- Fab light chain (20 kDa, Protein from Mus musculus)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Dodecyl-beta-d-maltoside (510 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 ]
- Fab heavy 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 3c conformation at an average resolution of 3.4 a, filtered to local resolution (56 kDa, Complex from Danio rerio)
- Water (18 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 light chain (20 kDa, Protein from Mus musculus)
- Sodium-dependent lysophosphatidylcholine symporter 1-b (56 kDa, Protein from Danio rerio)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
Cryo-EM structure of Macrophomina phaseolina macrophomene synthase
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 7wij
Q-score: 0.567
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)