Structure of PDB 7lr0 Chain D Binding Site BS02

Receptor Information
>7lr0 Chain D (length=646) Species: 43179 (Ictidomys tridecemlineatus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LKLYDRRSIFDAVAQNNCQELESLLPFLQKSRKRLTDSEFKDPETGKTCL
LKAMLNLHNGQNDTISLLLDIARQTDSLKEFVNASYTDSYYKGQTALHIA
IERRNMALVTLLVENGADVQAAANGDFFKKTKGRPGFYFGELPLSLAACT
NQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTADNTKFVTSM
YNEILILGAKLHPTLKLEELINKKGLTPLALAASSGKIGVLAYILQREIQ
EPECRHLSRKFTEWAYGPVHSSLYDLSCIDTCEKNSVLEVIAYSSSETPN
RHDMLLVEPLNRLLQDKWDRFVKRIFYFNFFVYCLYMIVFTTAAYYRPVD
GLPPYKLKNTVGDYFRVTGEILSVSGGVYFFLRGIQYFLQRRPSMKTLFV
DSYSEMLFFVQSLFMLGSVVLYFSHRKEYVASMVFSLAMGWTNMLYYTRG
FQQMGIYAVMIEKMILRDLCRFMFVYLVFLFGFSTAVVTLIEDGDSYNSL
YSTCLELFKFTIGMGDLEFTENYDFKAVFIILLLAYVILTYILLLNMLIA
LMGETVNKIAQESKNIWKLQRAITILDTEKSFLKCMRKAFRSGKLLQVGY
TPDGKDDYRWCFRVDEVNWTTWNTNVGIINEDPGNCEGVKRTLSFS
Ligand information
Ligand ID4DY
InChIInChI=1S/C18H27NO3/c1-14(2)8-6-4-5-7-9-18(21)19-13-15-10-11-16(20)17(12-15)22-3/h6,8,10-12,14,20H,4-5,7,9,13H2,1-3H3,(H,19,21)/b8-6+
InChIKeyYKPUWZUDDOIDPM-SOFGYWHQSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6CC(C)/C=C/CCCCC(=O)NCc1ccc(c(c1)OC)O
CACTVS 3.385COc1cc(CNC(=O)CCCCC=CC(C)C)ccc1O
ACDLabs 12.01c1(CNC(CCCC[C@H]=CC(C)C)=O)cc(OC)c(cc1)O
CACTVS 3.385COc1cc(CNC(=O)CCCC/C=C/C(C)C)ccc1O
OpenEye OEToolkits 1.7.6CC(C)C=CCCCCC(=O)NCc1ccc(c(c1)OC)O
FormulaC18 H27 N O3
Name(6E)-N-(4-hydroxy-3-methoxybenzyl)-8-methylnon-6-enamide;
Capsaicin;
8-Methyl-N-vanillyl-trans-6-nonenamide;
NGX-4010
ChEMBLCHEMBL294199
DrugBankDB06774
ZINCZINC000001530575
PDB chain7lr0 Chain D Residue 904 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7lr0 Extracellular cap domain is an essential component of the TRPV1 gating mechanism.
Resolution3.81 Å
Binding residue
(original residue number in PDB)		S514 L517 F545 T552 L555 Y556
Binding residue
(residue number reindexed from 1)		S404 L407 F435 T442 L445 Y446
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005216 monoatomic ion channel activity
GO:0005230 extracellular ligand-gated monoatomic ion channel activity
GO:0005261 monoatomic cation channel activity
GO:0005262 calcium channel activity
GO:0005516 calmodulin binding
GO:0005524 ATP binding
GO:0051219 phosphoprotein binding
GO:0097603 temperature-gated ion channel activity
Biological Process
GO:0000122 negative regulation of transcription by RNA polymerase II
GO:0001659 temperature homeostasis
GO:0001660 fever generation
GO:0002024 diet induced thermogenesis
GO:0002790 peptide secretion
GO:0006629 lipid metabolic process
GO:0006811 monoatomic ion transport
GO:0006816 calcium ion transport
GO:0009268 response to pH
GO:0009408 response to heat
GO:0014832 urinary bladder smooth muscle contraction
GO:0019233 sensory perception of pain
GO:0034220 monoatomic ion transmembrane transport
GO:0034605 cellular response to heat
GO:0048265 response to pain
GO:0048266 behavioral response to pain
GO:0050909 sensory perception of taste
GO:0050954 sensory perception of mechanical stimulus
GO:0050955 thermoception
GO:0050960 detection of temperature stimulus involved in thermoception
GO:0050965 detection of temperature stimulus involved in sensory perception of pain
GO:0050968 detection of chemical stimulus involved in sensory perception of pain
GO:0055085 transmembrane transport
GO:0060083 smooth muscle contraction involved in micturition
GO:0070588 calcium ion transmembrane transport
GO:0071468 cellular response to acidic pH
GO:0098703 calcium ion import across plasma membrane
GO:1901594 response to capsazepine
Cellular Component
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0032591 dendritic spine membrane
GO:0043005 neuron projection
GO:0045211 postsynaptic membrane
GO:0098982 GABA-ergic synapse

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7lr0, PDBe:7lr0, PDBj:7lr0
PDBsum7lr0
PubMed33846324
UniProtI3LZN5

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