3J5Q | pdb_00003j5q

Structure of TRPV1 ion channel in complex with DkTx and RTX determined by single particle electron cryo-microscopy

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	omega toxin-like	8082259	3000255	SCOP2B (2022-06-29)
G [auth F]	SCOP2B Superfamily	omega toxin-like	8082259	3000255	SCOP2B (2022-06-29)
F [auth C]	SCOP2B Superfamily	omega toxin-like	8082259	3000255	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	omega toxin-like	8082259	3000255	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E [auth A]	SNARE	e3j5qA01	A: alpha bundles	X: Rossmann-like	H: P-loop domains-related	T: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	F: SNARE	ECOD (develop294)
D [auth G]	POTRA	e3j5qG1	A: alpha bundles	X: CCHHC domain	H: CCHHC domain	T: CCHHC domain	F: POTRA	ECOD (develop294)
C [auth E]	POTRA	e3j5qE1	A: alpha bundles	X: CCHHC domain	H: CCHHC domain	T: CCHHC domain	F: POTRA	ECOD (develop294)
B	POTRA	e3j5qB1	A: alpha bundles	X: CCHHC domain	H: CCHHC domain	T: CCHHC domain	F: POTRA	ECOD (develop294)
A [auth D]	POTRA	e3j5qD1	A: alpha bundles	X: CCHHC domain	H: CCHHC domain	T: CCHHC domain	F: POTRA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth G]	1.25.40.20	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Ankyrin repeat-containing domain	CATH (4.3.0)
C [auth E]	1.25.40.20	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Ankyrin repeat-containing domain	CATH (4.3.0)
B	1.25.40.20	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Ankyrin repeat-containing domain	CATH (4.3.0)
A [auth D]	1.25.40.20	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat	Ankyrin repeat-containing domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth D], B, C [auth E], D [auth G]	PF00023	Ankyrin repeat (Ank)	Ankyrin repeat	-	Repeat
A [auth D], B, C [auth E], D [auth G]	PF00520	Ion transport protein (Ion_trans)	Ion transport protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth C], G [auth F], H	Kappa-theraphotoxin-Cg1a 1	molecular function inhibitor activity channel regulator activity transporter inhibitor activity ion channel inhibitor activity ion channel regulator activity molecular function regulator activity transporter regulator activity channel inhibitor activity potassium channel regulator activity sodium channel regulator activity toxin activity	-	cellular anatomical structure extracellular region
A [auth D], B, C [auth E], D [auth G]	Transient receptor potential cation channel subfamily V member 1	binding phospholipid binding lipid binding phosphatidylinositol binding calcium channel activity monoatomic cation transmembrane transporter activity intracellularly ligand-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity intracellularly gated calcium channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity binding phospholipid binding lipid binding phosphatidylinositol binding calcium channel activity monoatomic cation transmembrane transporter activity intracellularly ligand-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity intracellularly gated calcium channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity channel activity ligand-gated calcium channel activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity ligand-gated monoatomic cation channel activity transmembrane transporter activity phosphoprotein binding protein binding temperature-gated ion channel activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding excitatory extracellular ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity calmodulin binding cation binding metal ion binding identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity	regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of nitric oxide metabolic process positive regulation of nitric oxide biosynthetic process regulation of metabolic process positive regulation of cellular process cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality trans-synaptic signaling regulation of signaling cell surface receptor signaling pathway nervous system process cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication excitatory postsynaptic potential regulation of membrane potential positive regulation of signaling response to nutrient levels multicellular organismal-level homeostasis homeostatic process response to dietary excess diet induced thermogenesis temperature homeostasis energy homeostasis adaptive thermogenesis negative regulation of membrane potential regulation of mitochondrial membrane potential negative regulation of mitochondrial membrane potential regulation of tube diameter regulation of tube size positive regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction positive regulation of multicellular organismal process blood vessel diameter maintenance vasoconstriction blood circulation regulation of anatomical structure size cellular response to heat cellular response to stress response to stress response to heat response to abiotic stimulus response to temperature stimulus thermoception sensory perception sensory perception of temperature stimulus sensory perception of pain detection of stimulus sensory perception of chemical stimulus response to chemical detection of chemical stimulus detection of chemical stimulus involved in sensory perception of pain detection of stimulus involved in sensory perception detection of chemical stimulus involved in sensory perception positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death regulation of membrane depolarization membrane depolarization positive regulation of membrane depolarization cellular response to nitrogen compound cellular response to chemical stimulus response to nitrogen compound cellular response to alkaloid response to alkaloid cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor excretion micturition renal system process smooth muscle contraction involved in micturition urinary bladder smooth muscle contraction muscle contraction muscle system process smooth muscle contraction urinary tract smooth muscle contraction behavior multicellular organismal response to stress response to pain behavioral response to pain transport monoatomic ion transmembrane transport establishment of localization calcium ion transport metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport peptide transport peptide secretion secretion detection of external stimulus response to external stimulus detection of temperature stimulus involved in sensory perception detection of abiotic stimulus detection of temperature stimulus detection of temperature stimulus involved in sensory perception of pain cellular response to ATP response to organophosphorus response to oxygen-containing compound response to ATP response to purine-containing compound cellular response to oxygen-containing compound negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription negative regulation of RNA metabolic process response to pH response to acidic pH detection of temperature stimulus involved in thermoception defense response cell activation myeloid leukocyte activation leukocyte activation macrophage activation immune system process leukocyte activation involved in inflammatory response microglial cell activation inflammatory response glial cell activation neuroinflammatory response cellular response to temperature stimulus positive regulation of cytosolic calcium ion concentration response to hormone response to peptide hormone positive regulation of nervous system process regulation of sensory perception regulation of sensory perception of pain positive regulation of sensory perception of pain organic anion transport nitrogen compound transport carboxylic acid transport export from cell organic acid transport amino acid transport acidic amino acid transport secretion by cell dicarboxylic acid transport glutamate secretion sensory perception of taste regulation of localization negative regulation of monoatomic anion transport negative regulation of monoatomic ion transport negative regulation of transport regulation of monoatomic ion transmembrane transport negative regulation of transmembrane transport negative regulation of monoatomic ion transmembrane transport regulation of monoatomic anion transport monoatomic anion transmembrane transport iodide transmembrane transport inorganic anion transport regulation of iodide transport regulation of transport regulation of monoatomic ion transport negative regulation of iodide transmembrane transport regulation of monoatomic anion transmembrane transport iodide transport regulation of iodide transmembrane transport regulation of transmembrane transport monoatomic anion transport negative regulation of anion transmembrane transport negative regulation of iodide transport protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis cellular response to pH cellular response to acidic pH cellular response to abiotic stimulus cellular response to environmental stimulus regulation of body fluid levels positive regulation of urine volume regulation of urine volume lipid metabolic process fever generation acute-phase response heat generation acute inflammatory response regulation of developmental process cellular developmental process regulation of establishment of blood-brain barrier cell development regulation of cell differentiation regulation of cell development multicellular organism development cell differentiation anatomical structure development negative regulation of cell differentiation system development developmental process establishment of blood-brain barrier negative regulation of developmental process nervous system development negative regulation of cell development central nervous system development negative regulation of establishment of blood-brain barrier import into cell calcium ion transmembrane import into cytosol import across plasma membrane inorganic cation import across plasma membrane calcium ion import across plasma membrane inorganic ion import across plasma membrane calcium ion import calcium ion import into cytosol response to peptide cellular response to tumor necrosis factor response to cytokine cellular response to cytokine stimulus response to tumor necrosis factor cell projection organization regulation of cellular response to stress negative regulation of neuron projection regeneration neuron projection development regeneration neuron projection regeneration neuron differentiation response to wounding regulation of axon regeneration negative regulation of cellular component organization regulation of cell projection organization generation of neurons negative regulation of response to external stimulus regulation of neuron projection regeneration negative regulation of axon regeneration regulation of neuron projection development regulation of cellular component organization regulation of response to external stimulus response to axon injury regulation of response to wounding neurogenesis axon regeneration regulation of response to stress negative regulation of cell projection organization plasma membrane bounded cell projection organization negative regulation of response to stimulus negative regulation of response to wounding axon development negative regulation of neuron projection development neuron development regulation of plasma membrane bounded cell projection organization regulation of striated muscle cell differentiation regulation of cardiac muscle cell differentiation muscle cell differentiation striated muscle tissue development muscle structure development positive regulation of developmental process positive regulation of cell differentiation positive regulation of cardiocyte differentiation positive regulation of striated muscle cell differentiation muscle tissue development positive regulation of cardiac muscle cell differentiation heart development cardiac muscle tissue development animal organ development cardiac muscle cell differentiation tissue development positive regulation of muscle cell differentiation cardiocyte differentiation circulatory system development regulation of muscle cell differentiation regulation of cardiocyte differentiation striated muscle cell differentiation renal sodium excretion inorganic ion homeostasis regulation of renal system process positive regulation of secretion monoatomic ion homeostasis monoatomic cation homeostasis positive regulation of renal sodium excretion sodium ion homeostasis renal tubular secretion regulation of secretion regulation of renal sodium excretion positive regulation of transport chemical homeostasis regulation of excretion regulation of systemic arterial blood pressure regulation of blood pressure negative regulation of systemic arterial blood pressure negative regulation of blood pressure sensory perception of mechanical stimulus heart process negative regulation of heart rate regulation of heart contraction negative regulation of blood circulation negative regulation of heart contraction heart contraction negative regulation of multicellular organismal process regulation of heart rate response to capsazepine	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane somatodendritic compartment cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane cell surface external side of plasma membrane side of membrane somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection dendritic spine neuron projection membrane dendrite membrane cell leading edge neuron spine leading edge membrane dendritic spine membrane cell projection membrane membrane-bounded organelle intracellular anatomical structure intracellular membrane-bounded organelle endomembrane system sarcoplasm intracellular organelle organelle endoplasmic reticulum sarcoplasmic reticulum cytoplasm cell body neuronal cell body GABA-ergic synapse axon axon terminus presynapse distal axon neuron projection terminus nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth C], G [auth F], H	IPR011696	Huwentoxin-1 family	Family
A [auth D], B, C [auth E], D [auth G]	IPR002110	Ankyrin repeat	Repeat
A [auth D], B, C [auth E], D [auth G]	IPR024862	Transient receptor potential cation channel subfamily V	Family
A [auth D], B, C [auth E], D [auth G]	IPR008347	Transient receptor potential cation channel subfamily V member 1-4	Family
A [auth D], B, C [auth E], D [auth G]	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A [auth D], B, C [auth E], D [auth G]	IPR005821	Ion transport domain	Domain

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth D], B, C [auth E], D [auth G], E [auth A] A [auth D], B, C [auth E], D [auth G], E [auth A], F [auth C], G [auth F], H	OPM	Transmembrane	Alpha-helical polytopic	Ion channel (VIC) superfamily	Transient receptor potential channels

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth D], B, C [auth E], D [auth G], E [auth A] A [auth D], B, C [auth E], D [auth G], E [auth A], F [auth C], G [auth F], H	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth D], B, C [auth E], D [auth G], E [auth A] A [auth D], B, C [auth E], D [auth G], E [auth A], F [auth C], G [auth F], H	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth D], B, C [auth E], D [auth G], E [auth A] A [auth D], B, C [auth E], D [auth G], E [auth A], F [auth C], G [auth F], H	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Transient Receptor Potential (TRP)	TRPV1 transient receptor potential channel in complex with vanilloid agonist RTX

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.