Transient receptor potential cation channel subfamily V member 1
Rattus norvegicus
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric（4） Consistent with protein copy count | Chain A； UniProt 111–603 Chain A； UniProt 626–718 Chain B； UniProt 111–603 Chain B； UniProt 626–718 Chain C； UniProt 111–603 Chain C； UniProt 626–718 Chain D； UniProt 111–603 Chain D； UniProt 626–718 | Fragment：SEE REMARK 999 | No other associated polymer | ELECTRON MICROSCOPY cryo-EM buffer：150 mM NaCl, 20 mM HEPES, 2 mM TCEP；pH 7.4；150 mM NaCl, 20 mM HEPES, 2 mM TCEP cryo-EM vitrification conditions：Blot for 6 sec；120 K；Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III) | Resolution 3.27 Å |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 3J5P | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 2NYJ Crystal structure of the ankyrin repeat domain of TRPV1 Deposited 2006-11-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
101–364（264 aa）
Fragment：ankyrin repeart domain, residues 101-365
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | ATP ADENOSINE-5'-TRIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 5；298 K；0.033MM PROTEIN, 5% PEG8000, 0.1M SODIUM CITRATE, 5MM ATP, pH 5.00, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 3.20 Å R-free 0.286 |
| 2PNN Crystal Structure of the Ankyrin Repeat Domain of Trpv1 Deposited 2007-04-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
101–364（264 aa）
Fragment：Ankyrin Repeat Domain
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | ATP ADENOSINE-5'-TRIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 5；3% PEG 8000, 0.1M SODIUM CITRATE, 5MM ATP, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K, pH 5.00
|
Resolution 2.70 Å R-free 0.248 |
| 3J5Q Structure of TRPV1 ion channel in complex with DkTx and RTX determined by single particle electron cryo-microscopy Deposited 2013-10-28 | Different construct Different mutation/modification Different oligomeric state Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain B
111–719（609 aa）
Fragment：SEE REMARK 999
Chain D
111–719（609 aa）
Fragment：SEE REMARK 999
Chain E
111–719（609 aa）
Fragment：SEE REMARK 999
Chain G
111–719（609 aa）
Fragment：SEE REMARK 999
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
150 mM NaCl, 20 mM HEPES, 2 mM TCEP；pH 7.4；150 mM NaCl, 20 mM HEPES, 2 mM TCEP
cryo-EM vitrification conditions
Blot for 6 sec；120 K；Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III)
|
Resolution 3.80 Å |
| 3J5R Reconstruction of TRPV1 ion channel in complex with capsaicin by single particle cryo-microscopy Deposited 2013-10-28 | Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
111–603（493 aa）
Fragment：SEE REMARK 999
Chain A
626–718（93 aa）
Fragment：SEE REMARK 999
Chain B
111–603（493 aa）
Fragment：SEE REMARK 999
Chain B
626–718（93 aa）
Fragment：SEE REMARK 999
Chain C
111–603（493 aa）
Fragment：SEE REMARK 999
Chain C
626–718（93 aa）
Fragment：SEE REMARK 999
Chain D
111–603（493 aa）
Fragment：SEE REMARK 999
Chain D
626–718（93 aa）
Fragment：SEE REMARK 999
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
150 mM NaCl, 20 mM HEPES, 2 mM TCEP；pH 7.4；150 mM NaCl, 20 mM HEPES, 2 mM TCEP
cryo-EM vitrification conditions
Blot for 6 sec；120 K；Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III)
|
Resolution 4.20 Å |
| 3J9J Structure of the capsaicin receptor, TRPV1, determined by single particle electron cryo-microscopy Deposited 2015-02-02 | Different construct Different experimental conditions | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
111–603（493 aa）
Fragment：SEE REMARK 999
Chain A
627–719（93 aa）
Fragment：SEE REMARK 999
Chain B
111–603（493 aa）
Fragment：SEE REMARK 999
Chain B
627–719（93 aa）
Fragment：SEE REMARK 999
Chain C
111–603（493 aa）
Fragment：SEE REMARK 999
Chain C
627–719（93 aa）
Fragment：SEE REMARK 999
Chain D
111–603（493 aa）
Fragment：SEE REMARK 999
Chain D
627–719（93 aa）
Fragment：SEE REMARK 999
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.27 Å |
| 3SUI Crystal structure of ca2+-calmodulin in complex with a trpv1 c-terminal peptide Deposited 2011-07-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
767–801（35 aa）
Fragment：Unp residues 767-801
|
Not recorded | CA CALCIUM ION × 4 SO4 SULFATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；298 K；0.1M MES PH6.0, 2.2-2.8M AMMONIUM SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K
|
Resolution 1.95 Å R-free 0.248 |
| 5IRX Structure of TRPV1 in complex with DkTx and RTX, determined in lipid nanodisc Deposited 2016-03-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain A
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain B
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain B
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
|
Not recorded | 6O8 (4R,7S)-4-hydroxy-N,N,N-trimethyl-4,9-dioxo-7-[(pentanoyloxy)methyl]-3,5,8-trioxa-4lambda~5~-phosphatetradecan-1-aminium × 4 6OE (2S)-3-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate × 8 6EU resiniferatoxin × 4 6O9 (2S)-2-(acetyloxy)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}propyl pentanoate × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 2.95 Å |
| 5IRZ Structure of TRPV1 determined in lipid nanodisc Deposited 2016-03-15 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain B
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain B
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain E
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain E
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
|
Not recorded | 6O8 (4R,7S)-4-hydroxy-N,N,N-trimethyl-4,9-dioxo-7-[(pentanoyloxy)methyl]-3,5,8-trioxa-4lambda~5~-phosphatetradecan-1-aminium × 4 6ES (2S)-1-{[(R)-hydroxy{[(1R,2R,3S,4S,5S,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}-3-(pentanoyloxy)propan-2-yl decanoate × 4 6OE (2S)-3-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate × 16 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 3.28 Å |
| 5IS0 Structure of TRPV1 in complex with capsazepine, determined in lipid nanodisc Deposited 2016-03-15 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain B
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain B
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain C
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain D
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
Chain E
110–603（494 aa）
Fragment：UNP residues 110-603, 627-764
Chain E
627–764（138 aa）
Fragment：UNP residues 110-603, 627-764
|
Not recorded | 6ET capsazepine × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Blot for 6 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).
|
Resolution 3.43 Å |
| 7L2H Cryo-EM structure of unliganded full-length TRPV1 at neutral pH Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 XJD (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl tridecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.63 Å |
| 7L2I Cryo-EM structure of full-length TRPV1 at pH6a state Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | XJA (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1S,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 7L2J Cryo-EM structure of full-length TRPV1 at pH6c state Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.66 Å |
| 7L2K Cryo-EM structure of full-length TRPV1 at pH6b state Deposited 2020-12-17 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.89 Å |
| 7L2L Cryo-EM structure of RTX-bound full-length TRPV1 in O1 state Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | 6EU resiniferatoxin × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.42 Å |
| 7L2M Cryo-EM structure of DkTx/RTX-bound full-length TRPV1 Deposited 2020-12-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | 6EU resiniferatoxin × 4 NA SODIUM ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.84 Å |
| 7L2N Cryo-EM structure of RTX-bound full-length TRPV1 in C1 state Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | 6EU resiniferatoxin × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.09 Å |
| 7L2O Cryo-EM structure of RTX-bound full-length TRPV1 at pH 5.5 Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | 6EU resiniferatoxin × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 5.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.64 Å |
| 7L2P cryo-EM structure of unliganded minimal TRPV1 Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 6IY (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 7L2R Cryo-EM structure of DkTx-bound minimal TRPV1 at the pre-open state Deposited 2020-12-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 65I (9R,12R)-15-amino-12-hydroxy-6,12-dioxo-7,11,13-trioxa-12lambda~5~-phosphapentadecan-9-yl undecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 7L2S cryo-EM structure of DkTx-bound minimal TRPV1 at the pre-bound state Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 6IY (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.71 Å |
| 7L2T cryo-EM structure of DkTx-bound minimal TRPV1 in partial open state Deposited 2020-12-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 NA SODIUM ION × 1 65I (9R,12R)-15-amino-12-hydroxy-6,12-dioxo-7,11,13-trioxa-12lambda~5~-phosphapentadecan-9-yl undecanoate × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.08 Å |
| 7L2U cryo-EM structure of DkTx-bound minimal TRPV1 in open state Deposited 2020-12-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 XKP (11R,14S)-17-amino-14-hydroxy-8,14-dioxo-9,13,15-trioxa-14lambda~5~-phosphaheptadecan-11-yl decanoate × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.47 Å |
| 7L2V cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state b Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | 6EU resiniferatoxin × 4 XPS 6-deoxy-6-(methylamino)-D-galactitol × 1 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.82
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.64 Å |
| 7L2W cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state a Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | 6EU resiniferatoxin × 4 6IY (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.82
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.16 Å |
| 7L2X cryo-EM structure of RTX-bound minimal TRPV1 with NMDG at state c Deposited 2020-12-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | 6EU resiniferatoxin × 4 6IY (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate × 4 XPJ 1-deoxy-1-(methylamino)-D-allitol × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.82
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.26 Å |
| 7LP9 Cryo-EM structure of full-length TRPV1 at 4 degrees Celsius Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | T7X Phosphatidylinositol × 4 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 28 NA SODIUM ION × 2 YFP 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.63 Å |
| 7LPA Cryo-EM structure of full-length TRPV1 with capsaicin at 4 degrees Celsius Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 12 4DY (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide × 4 YFP 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.37 Å |
| 7LPB Cryo-EM structure of full-length TRPV1 with capsaicin at 25 degrees Celsius Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 12 YFP 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol × 4 4DY (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.54 Å |
| 7LPC Cryo-EM structure of full-length TRPV1 at 48 degrees Celsius Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 24 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 YFP 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol × 4 T7X Phosphatidylinositol × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.06 Å |
| 7LPD Cryo-EM structure of full-length TRPV1 with capsaicin at 48 degrees Celsius, in an intermediate state, class 2 Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 12 4DY (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.55 Å |
| 7LPE Cryo-EM structure of full-length TRPV1 with capsaicin at 48 degrees Celsius, in an open state, class 1 Deposited 2021-02-11 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 4 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 4 4DY (6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.72 Å |
| 7MZ5 Cryo-EM structure of RTX-bound full-length TRPV1 in C2 state Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–838（837 aa）
Chain B
2–838（837 aa）
Chain C
2–838（837 aa）
Chain D
2–838（837 aa）
|
Not recorded | 6EU resiniferatoxin × 4 NA SODIUM ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.76 Å |
| 7MZ6 Cryo-EM structure of minimal TRPV1 with 1 perturbed PI Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 4 6IY (10R,13S)-16-amino-13-hydroxy-7,13-dioxo-8,12,14-trioxa-13lambda~5~-phosphahexadecan-10-yl hexadecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.91 Å |
| 7MZ7 Cryo-EM structure of minimal TRPV1 with 4 partially bound RTX Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | 6EU resiniferatoxin × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.35 Å |
| 7MZ9 Cryo-EM structure of minimal TRPV1 with 1 partially bound RTX Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | 6EU resiniferatoxin × 1 XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 3 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.18 Å |
| 7MZA Cryo-EM structure of minimal TRPV1 with 2 bound RTX in adjacent pockets Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 2 6EU resiniferatoxin × 2 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.46 Å |
| 7MZB Cryo-EM structure of minimal TRPV1 with 3 bound RTX and 1 perturbed PI Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 1 6EU resiniferatoxin × 3 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.72 Å |
| 7MZC Cryo-EM structure of minimal TRPV1 with RTX bound in C1 state Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | 6EU resiniferatoxin × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.3
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.03 Å |
| 7MZD Cryo-EM structure of minimal TRPV1 with RTX bound in C2 state Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | 6EU resiniferatoxin × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.3
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7MZE Cryo-EM structure of minimal TRPV1 with 2 bound RTX in opposite pockets Deposited 2021-05-24 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Fragment：UNP residues 110-764
Chain B
110–764（655 aa）
Fragment：UNP residues 110-764
Chain C
110–764（655 aa）
Fragment：UNP residues 110-764
Chain D
110–764（655 aa）
Fragment：UNP residues 110-764
|
Not recorded | XJ7 (2S)-1-(butanoyloxy)-3-{[(R)-hydroxy{[(1r,2R,3S,4S,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propan-2-yl tridecanoate × 2 NA SODIUM ION × 1 6EU resiniferatoxin × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.85
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.42 Å |
| 7RQU Cryo-EM structure of the full-length TRPV1 with RTx at 4 degrees Celsius, in a closed state, class I Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 6EU resiniferatoxin × 4 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 20 YFP 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.05 Å |
| 7RQV Cryo-EM structure of the full-length TRPV1 with RTx at 4 degrees Celsius, in an intermediate-closed state, class II Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 4 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 12 6EU resiniferatoxin × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.45 Å |
| 7RQW Cryo-EM structure of the full-length TRPV1 with RTx at 4 degrees Celsius, in an open state, class III Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 6EU resiniferatoxin × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 4 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 4 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.11 Å |
| 7RQX Cryo-EM structure of the full-length TRPV1 with RTx at 25 degrees Celsius, in an intermediate-open state, class A Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 12 6EU resiniferatoxin × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.36 Å |
| 7RQY Cryo-EM structure of the full-length TRPV1 with RTx at 25 degrees Celsius, in an open state, class B Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 6EU resiniferatoxin × 4 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 4 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.04 Å |
| 7RQZ Cryo-EM structure of the full-length TRPV1 with RTx at 48 degrees Celsius, in an open state, class alpha Deposited 2021-08-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 6EU resiniferatoxin × 4 LBN 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine × 8 6OU [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.32 Å |
| 8T0C TRPV1 in Nanodisc bound with lysophosphatidic acid in all four monomers Deposited 2023-05-31 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | NKN (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8T0E TRPV1 in Nanodisc not bound with lysophosphatidic acid (apo) Deposited 2023-05-31 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Fragment：truncated construct
Chain B
1–838（838 aa）
Fragment：truncated construct
Chain C
1–838（838 aa）
Fragment：truncated construct
Chain D
1–838（838 aa）
Fragment：truncated construct
|
Not recorded | 8IJ (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 8T0Y TRPV1 in nanodisc bound with one LPA in one monomer Deposited 2023-06-01 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Fragment：truncated construct
Chain B
1–838（838 aa）
Fragment：truncated construct
Chain C
1–838（838 aa）
Fragment：truncated construct
Chain D
1–838（838 aa）
Fragment：truncated construct
|
Not recorded | 8IJ (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate × 3 NA SODIUM ION × 1 NKN (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8T10 TRPV1 in nanodisc bound with two LPA molecules in opposite monomers Deposited 2023-06-01 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Fragment：truncated construct
Chain B
1–838（838 aa）
Fragment：truncated construct
Chain C
1–838（838 aa）
Fragment：truncated construct
Chain D
1–838（838 aa）
Fragment：truncated construct
|
Not recorded | 8IJ (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate × 2 NA SODIUM ION × 2 NKN (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 8T3L TRPV1 in nanodisc bound with 2 LPA molecules in neighboring monomers Deposited 2023-06-07 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | 8IJ (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctadecanoate × 2 NA SODIUM ION × 2 NKN (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 8T3M TRPV1 in nanodisc bound with 3 LPA molecules Deposited 2023-06-07 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | 85R [(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 × 1 NA SODIUM ION × 2 NKN (2R)-2-hydroxy-3-(phosphonooxy)propyl tetradecanoate × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8U2Z TRPV1 in nanodisc bound with diC8-PIP2 in the dilated state Deposited 2023-09-06 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | PIO [(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 × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 4 CLR CHOLESTEROL × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 8U30 TRPV1 in nanodisc bound with diC8-PIP2 in the closed state Deposited 2023-09-06 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | PIO [(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 × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8U3A TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 1 (monomer) Deposited 2023-09-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | VPN (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 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 1 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.30 Å |
| 8U3C TRPV1 in nanodisc bound with PI-Br4 bound in Conformation 2 (monomer) Deposited 2023-09-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | VPN (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 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 1 3PH 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE × 1 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.30 Å |
| 8U3J TRPV1 in nanodisc bound with empty vanilloid binding pocket at 4C Deposited 2023-09-07 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
197–753（557 aa）
Chain B
197–753（557 aa）
Chain C
197–753（557 aa）
Chain D
197–753（557 aa）
|
Not recorded | 3PH 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8U3L TRPV1 in nanodisc bound with empty vanilloid binding pocket at 25C Deposited 2023-09-07 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | 3PH 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 8U43 TRPV1 in nanodisc bound with PIP2-Br4 Deposited 2023-09-08 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | V5H (2S)-2-[(9,10-dibromooctadecanoyl)oxy]-3-{[(S)-hydroxy{[(1R,2R,3S,4R,5R,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propyl (9R,10S)-9,10-dibromooctadecanoate × 4 PCW 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 8U4D TRPV1 in nanodisc bound with PI-Br4, consensus structure Deposited 2023-09-10 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
110–764（655 aa）
Chain B
110–764（655 aa）
Chain C
110–764（655 aa）
Chain D
110–764（655 aa）
|
Not recorded | VPN (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 × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9ISG Structure of rat TRPV1 in complex with PSFL426-S5 Deposited 2024-07-17 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | A1D92 4-azanyl-3-sulfanylidene-1,2,4-triazine-5,6-dione × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 9OGK Refinement of PDB-3J5R against EMD-8117 using EMAN2 Deposited 2025-04-30 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 9W4M ratTRPV1 bound with antagonist AMG517 Deposited 2025-07-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | A1D6R ~{N}-[4-[6-[4-(trifluoromethyl)phenyl]pyrimidin-4-yl]oxy-1,3-benzothiazol-2-yl]ethanamide × 4 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 9W4N Structure of rat TRPV1 in complex with SB-366791 Deposited 2025-07-31 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | ZEI (2E)-3-(4-chlorophenyl)-N-(3-methoxyphenyl)prop-2-enamide × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；20 mM Hepes, 150 mM NaCl
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.25 Å |
| 9W4T ratTRPV1 bound with antagonist AMG9810 Deposited 2025-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Homooligomer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–838（838 aa）
Chain B
1–838（838 aa）
Chain C
1–838（838 aa）
Chain D
1–838（838 aa）
|
Not recorded | A1D6W (~{Z})-3-(4-~{tert}-butylphenyl)-~{N}-(2,3-dihydro-1,4-benzodioxin-6-yl)prop-2-enamide × 4 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.87 Å |
65 other PDB entries and 65 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | TRPV1_RAT |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 1–493； UniProt 111–603 Author chain A； PDBConstruct 494–586； UniProt 626–718 Author chain B； PDBConstruct 1–493； UniProt 111–603 Author chain B； PDBConstruct 494–586； UniProt 626–718 Author chain C； PDBConstruct 1–493； UniProt 111–603 Author chain C； PDBConstruct 494–586； UniProt 626–718 Author chain D； PDBConstruct 1–493； UniProt 111–603 Author chain D； PDBConstruct 494–586； UniProt 626–718 |
