6NT4

Cryo-EM structure of a human-cockroach hybrid Nav channel bound to alpha-scorpion toxin AaH2.

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
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Scorpion toxin-like	8038168	3000309	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Scorpion toxin-like	8038168	3000309	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)
B	PF00537	e6nt4B1	A: few secondary structure elements	X: omega toxin-like	H: omega toxin-related	T: Scorpion toxin-like	F: PF00537	ECOD (1.6)
C	PF00537	e6nt4C1	A: few secondary structure elements	X: omega toxin-like	H: omega toxin-related	T: Scorpion toxin-like	F: PF00537	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.30.10	Alpha Beta	2-Layer Sandwich	Defensin A-like	Knottin, scorpion toxin-like	CATH (4.3.0)
C	3.30.30.10	Alpha Beta	2-Layer Sandwich	Defensin A-like	Knottin, scorpion toxin-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF16905	Voltage-dependent L-type calcium channel, IQ-associated (GPHH)	Voltage-dependent L-type calcium channel, IQ-associated	-	Family
A	PF00520	Ion transport protein (Ion_trans)	Ion transport protein	-	Family
B, C	PF00537	Scorpion toxin-like domain (Toxin_3)	Scorpion toxin-like domain	This family contains both neurotoxins and plant defensins. The mustard trypsin inhibitor, MTI-2, is plant defensin. It is a potent inhibitor of trypsin with no activity towards chymotrypsin. MTI-2 is toxic for Lepidopteran insects, but has low activ ...	This family contains both neurotoxins and plant defensins. The mustard trypsin inhibitor, MTI-2, is plant defensin. It is a potent inhibitor of trypsin with no activity towards chymotrypsin. MTI-2 is toxic for Lepidopteran insects, but has low activity against aphids [1]. Brazzein is plant defensin-like protein. It is pH-stable, heat-stable and intensely sweet protein [2]. The scorpion toxin (a neurotoxin) binds to sodium channels and inhibits the activation mechanisms of the channels, thereby blocking neuronal transmission. Scorpion toxins bind to sodium channels and inhibit the activation mechanisms of the channels, thereby blocking neuronal transmission	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Sodium channel protein PaFPC1,Sodium channel protein type 9 subunit alpha,Sodium channel protein PaFPC1	calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity high voltage-gated calcium channel activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity voltage-gated sodium channel activity sodium channel activity sodium ion transmembrane transporter activity	rhythmic process circadian rhythm response to stimulus response to chemical response to toxic substance behavior multicellular organismal process response to stress multicellular organismal response to stress response to pain behavioral response to pain transport monoatomic ion transmembrane transport sodium ion transmembrane transport rhythmic process circadian rhythm response to stimulus response to chemical response to toxic substance behavior multicellular organismal process response to stress multicellular organismal response to stress response to pain behavioral response to pain transport monoatomic ion transmembrane transport sodium ion transmembrane transport inorganic ion transmembrane transport establishment of localization metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport sodium ion transport import into cell calcium ion transmembrane import into cytosol import across plasma membrane inorganic cation import across plasma membrane calcium ion transport calcium ion import across plasma membrane inorganic ion import across plasma membrane calcium ion import calcium ion import into cytosol calcium ion transmembrane transport detection of external stimulus system process detection of stimulus involved in sensory perception of pain nervous system process response to external stimulus sensory perception of temperature stimulus sensory perception of pain detection of temperature stimulus involved in sensory perception response to temperature stimulus detection of abiotic stimulus detection of stimulus sensory perception detection of temperature stimulus response to abiotic stimulus detection of stimulus involved in sensory perception detection of temperature stimulus involved in sensory perception of pain defense response inflammatory response developmental process multicellular organism development anatomical structure development post-embryonic development response to mechanical stimulus detection of mechanical stimulus involved in sensory perception sensory perception of mechanical stimulus detection of mechanical stimulus	cell periphery plasma membrane membrane cellular anatomical entity protein-containing complex sodium channel complex voltage-gated sodium channel complex plasma membrane protein complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex axon cell periphery plasma membrane membrane cellular anatomical entity protein-containing complex sodium channel complex voltage-gated sodium channel complex plasma membrane protein complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex axon cell projection neuron projection plasma membrane bounded cell projection voltage-gated calcium channel complex calcium channel complex
B, C	Alpha-mammal toxin AaH2	molecular function inhibitor activity sodium channel inhibitor activity channel regulator activity transporter inhibitor activity ion channel regulator activity ion channel inhibitor activity molecular function regulator activity sodium channel regulator activity transporter regulator activity channel inhibitor activity toxin activity	response to stimulus defense response response to stress	extracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR024583	Voltage-gated Na+ ion channel, cytoplasmic domain	Domain
A	IPR001696	Voltage gated sodium channel, alpha subunit	Family
A	IPR000048	IQ motif, EF-hand binding site	Binding Site
A	IPR010526	Sodium ion transport-associated domain	Domain
A	IPR005821	Ion transport domain	Domain
A	IPR044564	Voltage-gated sodium channel alpha subunit, inactivation gate	Domain
A	IPR043203	Voltage-gated cation channel calcium and sodium	Family
A	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily
A	IPR005821	Ion transport domain	Domain
A	IPR031649	Voltage-dependent L-type calcium channel, IQ-associated domain	Domain
A	IPR001696	Voltage gated sodium channel, alpha subunit	Family
A	IPR043203	Voltage-gated cation channel calcium and sodium	Family
A	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily
B, C	IPR036574	Knottin, scorpion toxin-like superfamily	Homologous Superfamily
B, C	IPR018218	Scorpion long chain toxin	Family
B, C	IPR002061	Scorpion long chain toxin/defensin	Family
B, C	IPR003614	Knottin, scorpion toxin-like	Domain
B, C	IPR044062	LCN-type cysteine-stabilized alpha/beta (CS-alpha/beta) domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q15858	paroxysmal extreme pain disorder erythromelalgia epilepsy channelopathy-associated congenital insensitivity to pain, autosomal recessive generalized epilepsy with febrile seizures plus primary erythermalgia neuralgia partial epilepsy Pruritus hereditary sensory and autonomic neuropathy type 2 peripheral neuropathy postherpetic neuralgia generalized epilepsy with febrile seizures plus, type 7 early myoclonic encephalopathy neuropathy, hereditary sensory and autonomic, type 2A paroxysmal extreme pain disorder erythromelalgia epilepsy channelopathy-associated congenital insensitivity to pain, autosomal recessive generalized epilepsy with febrile seizures plus primary erythermalgia neuralgia partial epilepsy Pruritus hereditary sensory and autonomic neuropathy type 2 peripheral neuropathy postherpetic neuralgia generalized epilepsy with febrile seizures plus, type 7 early myoclonic encephalopathy neuropathy, hereditary sensory and autonomic, type 2A tinea pedis lung cancer peripheral nervous system disease urethritis malignant ependymoma pituitary cancer generalized epilepsy with febrile seizures plus, type 2 hemorrhoid Lennox-Gastaut syndrome developmental and epileptic encephalopathy, 6 status epilepticus tinea corporis malignant mesothelioma Morvan syndrome Riley-Day syndrome Herpesviridae infectious disease bipolar disorder Charcot-Marie-Tooth disease intellectual disability Dravet syndrome pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia epilepsy with generalized tonic-clonic seizures trigeminal neuralgia malignant colon neoplasm Pediculus humanus capitis infestation pilocytic astrocytoma familial infantile myoclonic epilepsy premature ejaculation glossopharyngeal neuralgia Pthirus pubis infestation hereditary sensory and autonomic neuropathy scabies cystic fibrosis osteosarcoma

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C	OPM	Transmembrane	Alpha-helical polytopic	Ion channel (VIC) superfamily	Voltage-gated calcium and sodium channels

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Potassium, Sodium, & Proton Ion-Selective	Voltage-Gated Sodium Channel (Na_V), human/cockroach chimera

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B, C	NH2	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109

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 R01GM133198.