8YHZ | pdb_00008yhz

The co-crystal structure of the Fab fragment of Ab-1080 with NaV1.7 VSDII peptide

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth L]	C1-set	e8yhzL01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: C1-set	ECOD (v294.1)
B [auth H]	C1-set	e8yhzH01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: C1-set	ECOD (v294.1)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L]	Light Chain	IGKV1	Kappa	sodium channel protein type 9 subunit alpha	SAbDab (2026-03-27)
B [auth H]	Heavy Chain	IGHV1	-	sodium channel protein type 9 subunit alpha	SAbDab (2026-03-27)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	Light chain of 1080 Fab	-	-	-
B [auth H]	Heavy chain of 1080 Fab	-	-	-
C [auth P]	Sodium channel protein type 9 subunit alpha	monoatomic cation transmembrane transporter activity voltage-gated sodium channel activity monoatomic ion channel activity sodium channel activity sodium ion transmembrane transporter activity monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity	heart process cardiac muscle cell contraction multicellular organismal process system process cardiac muscle cell action potential involved in contraction biological regulation action potential actin filament-based movement cardiac muscle contraction muscle contraction muscle system process striated muscle contraction circulatory system process actin filament-based process heart process cardiac muscle cell contraction multicellular organismal process system process cardiac muscle cell action potential involved in contraction biological regulation action potential actin filament-based movement cardiac muscle contraction muscle contraction muscle system process striated muscle contraction circulatory system process actin filament-based process cellular process regulation of biological quality actin-mediated cell contraction heart contraction cardiac muscle cell action potential blood circulation regulation of membrane potential rhythmic process circadian rhythm response to stimulus response to chemical response to toxic substance behavior response to stress multicellular organismal response to stress response to pain behavioral response to pain transport monoatomic ion transmembrane transport sodium ion transmembrane transport establishment of localization metal ion transport monoatomic cation transmembrane transport transmembrane transport localization monoatomic ion transport monoatomic cation transport sodium ion transport nervous system process transmission of nerve impulse cell communication neuronal action potential detection of external stimulus 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 action potential propagation 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	axon cell projection cellular anatomical structure main axon neuron projection node of Ranvier plasma membrane bounded cell projection cell periphery plasma membrane membrane protein-containing complex sodium channel complex voltage-gated sodium channel complex plasma membrane protein complex axon cell projection cellular anatomical structure main axon neuron projection node of Ranvier plasma membrane bounded cell projection cell periphery plasma membrane membrane 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 synapse axon terminus presynapse distal axon cell junction neuron projection terminus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth P]	IPR024583	Voltage-gated Na+ ion channel, cytoplasmic domain	Domain
C [auth P]	IPR001696	Voltage gated sodium channel, alpha subunit	Family
C [auth P]	IPR058542	SCN5A-like, C-terminal IQ motif	Domain
C [auth P]	IPR000048	IQ motif, EF-hand binding site	Binding Site
C [auth P]	IPR010526	Sodium ion transport-associated domain	Domain
C [auth P]	IPR005821	Ion transport domain	Domain
C [auth P]	IPR044564	Voltage-gated sodium channel alpha subunit, inactivation gate	Domain
C [auth P]	IPR043203	Voltage-gated cation channel calcium and sodium	Family
C [auth P]	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth P]	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 urethritis malignant ependymoma peripheral nervous system disease pituitary cancer generalized epilepsy with febrile seizures plus, type 2 hemorrhoid Lennox-Gastaut syndrome status epilepticus developmental and epileptic encephalopathy, 6 tinea corporis malignant mesothelioma Morvan syndrome Herpesviridae infectious disease bipolar disorder Riley-Day syndrome intellectual disability Charcot-Marie-Tooth disease pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Dravet syndrome trigeminal neuralgia malignant colon neoplasm Pediculus humanus capitis infestation epilepsy with generalized tonic-clonic seizures pilocytic astrocytoma familial infantile myoclonic epilepsy premature ejaculation glossopharyngeal neuralgia hereditary sensory and autonomic neuropathy Pthirus pubis infestation scabies osteosarcoma cystic fibrosis

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.