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TRPV1 in Nanodisc bound with lysophosphatidic acid in all four monomers
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8t0c
Q-score: 0.457
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Sodium ion (22 Da, Ligand)
- Trpv1 in nanodisc bound with lysophosphatidic acid in all four monomers (688 kDa, Complex from Rattus norvegicus)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate (382 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
TRPV1 in Nanodisc not bound with lysophosphatidic acid (apo)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8t0e
Q-score: 0.462
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Water (18 Da, Ligand)
- (2r)-3-{[(r)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate (867 Da, Ligand)
- Trpv1 in nanodisc, no lysophosphatidic acid bound (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with one LPA in one monomer
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8t0y
Q-score: 0.471
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- (2r)-3-{[(r)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate (867 Da, Ligand)
- Trpv1 in nanodisc bound with one lpa in one monomer (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate (382 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with two LPA molecules in opposite monomers
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- (2r)-3-{[(r)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate (867 Da, Ligand)
- Trpv1 in nanodisc bound with two lpa molecules in opposite monomers (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate (382 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with 2 LPA molecules in neighboring monomers
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8t3l
Q-score: 0.47
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- (2r)-3-{[(r)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate (867 Da, Ligand)
- Trpv1 in nanodisc bound with 2 lpa molecules in neighboring monomers (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate (382 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (73 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with 3 LPA molecules
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8t3m
Q-score: 0.447
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Trpv1 in nanodisc bound with 2 lpa molecules in neighboring monomers (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate (382 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (73 kDa, Protein from Rattus norvegicus)
- [(2~{r})-2-hexadecanoyloxy-3-[oxidanyl-[(2~{s},3~{s},5~{r},6~{s})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propyl] hexadecanoate (811 Da, Ligand)
TRPV1 in nanodisc bound with diC8-PIP2 in the dilated state
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8u2z
Q-score: 0.447
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Water (18 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Trpv1 in nanodisc bound with dic8-pip2 in the dilated state (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (72 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with diC8-PIP2 in the closed state
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8u30
Q-score: 0.544
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Water (18 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Trpv1 in nanodisc bound with dic8-pip2 in the dilated state (688 kDa, Complex from Rattus norvegicus)
- Sodium ion (22 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 1 (monomer)
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8u3a
Q-score: 0.671
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (72 kDa, Protein from Rattus norvegicus)
- Trpv1 in nanodisc bound with pi-br4 in conformation 1 (monomer) (688 kDa, Complex from Rattus norvegicus)
- (2s)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(s)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9r,10s)-9,10-dibromooctadecanoate (1 kDa, Ligand)
TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 2 (monomer)
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8u3c
Q-score: 0.649
Arnold WR, Mancino A, Moss 3rd FR, Frost A, Julius D, Cheng Y
Nat Struct Mol Biol (2024) [ Pubmed: 38698206 DOI: doi:10.1038/s41594-024-01299-2 ]
- Water (18 Da, Ligand)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 1 (92 kDa, Protein from Rattus norvegicus)
- Trpv1 in nanodisc bound with pi-br4 in conformation 2 (monomer) (688 kDa, Complex from Rattus norvegicus)
- (2s)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(s)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9r,10s)-9,10-dibromooctadecanoate (1 kDa, Ligand)