Structure of PDB 7wfr Chain A

Receptor sequence

>7wfrA (length=1100) Species: 9606 (Homo sapiens)

SWFSLFITVTILVNCVCMTRTDLPEKIEYVFTVIYTFEALIKILARGDPW
NWLDFSVITLAYVGTAIDLRGISGLRTFRVLRALKTVSVIPGLKVIVGAL
IHSVKKLADVTILTIFCLSVFALVGLQLFKGNLKNKCVKNDMAYSSHRKP
DIYINKRGTSDPLLCGNGSDSGHCPDGYICLKTSDNPDFNYTSFDSFAWA
FLSLFRLMTQDSWERLYQQTLRTSGKIYMIFFVLVIFLGSFYLVNLILAV
VTMAYEEQNQATWVKLKTILFGLVTDPFAELTITLCIVVNTIFMAMEHHG
MSPTFEAMLQIGNIVFTIFFTAEMVFKIIAFDPYYYFQKKWNIFDCIIVT
VSLLELGVAKKGSLSVLRSFRLLRVFKLAKSWPTLNTLIKIIGNSVGALG
NLTIILAIIVFVFALVGKQLLGENYRNNRKNISAPHEDWPRWHMHDFFHS
FLIVFRILCGEWIENMWACMEVGQKSICLILFLTVMVLGNLVVLNLFIAL
LLNSFFADVGWQVRKTCYRIVEHSWFESFIIFMILLSSGSLAFEDYYLDQ
KPTVKALLEYTDRVFTFIFVFEMLLKWVAYGFKKYFTNAWCWLDFLIVNI
SLISLTAKILEYSEVAPIKALRTLRALRPLRALSRFEGMRVVVDALVGAI
PSIMNVLLVCLIFWLIFSIMGVNLFAGKFWRCINYTDGEFSLVPLSIVNN
KSDCKIQNSTGSFFWVNVKVNFDNVAMGYLALLQVATFKGWMDIMYAAVD
SREVNMQPKWEDNVYMYLYFVIFIIFGGFFTLNLFVGVIIDNFNQQKKKL
GGQDIFMTEEQKKYYNAMKKLGSKKPQKPIPRPLNKFQGFVFDIVTRQAF
DITIMVLICLNMITMMVETDDQSEEKTKILGKINQFFVAVFTGECVMKMF
ALRQYYFTNGWNVFDFIVVVLSIASLIFSAILKSLQSYFSPTLFRVIRLA
RIGRILRLIRAAKGIRTLLFALMMSLPALFNIGLLLFLVMFIYSIFGMSS
FPHVRWEAGIDDMFNFQTFANSMLCLFQITTSAGWDGLLSPILNTGPPYC
DPNLPNSNGTRGDCGSPAVGIIFFTTYIIISFLIMVNMYIAVILENFNVA

3D structure

• PDB: 7wfr Structural basis for high-voltage activation and subtype-specific inhibition of human Na v 1.8.
• Chain: A
• Resolution: 3.0 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	95T	A	Q355 F386 T1659 F1710 M1713	Q210 F241 T1031 F1082 M1085
BS02	CLR	A	T679 S769 W770 I1290	T291 S381 W382 I662
BS03	LPE	A	L1604 P1605 F1608	L976 P977 F980
BS04	LPE	A	V243 K244 L246	V104 K105 L107
BS05	LPE	A	V784 T791 L794 L846 I1403 F1407	V396 T403 L406 L458 I775 F779
BS06	CLR	A	K728 I735	K340 I347
BS07	LPE	A	A1170 F1171 F1615 F1619 F1647	A542 F543 F987 F991 F1019
BS08	LPE	A	S690 M696	S302 M308
BS09	CLR	A	S341 V1495	S196 V867
BS10	CLR	A	L393 F885 L889 I1418 Y1717 I1718	L248 F497 L501 I790 Y1089 I1090
BS11	P5S	A	W1292 N1352 A1354 L1361 I1699 I1707	W664 N724 A726 L733 I1071 I1079

Gene Ontology

Molecular Function

• GO:0005216 monoatomic ion channel activity
• GO:0005248 voltage-gated sodium channel activity
• GO:0005261 monoatomic cation channel activity
• GO:0005272 sodium channel activity
• GO:0044325 transmembrane transporter binding
• GO:0099508 voltage-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential

Biological Process

• GO:0002027 regulation of heart rate
• GO:0006811 monoatomic ion transport
• GO:0006814 sodium ion transport
• GO:0007600 sensory perception
• GO:0034220 monoatomic ion transmembrane transport
• GO:0034765 regulation of monoatomic ion transmembrane transport
• GO:0035725 sodium ion transmembrane transport
• GO:0042475 odontogenesis of dentin-containing tooth
• GO:0055085 transmembrane transport
• GO:0055117 regulation of cardiac muscle contraction
• GO:0060371 regulation of atrial cardiac muscle cell membrane depolarization
• GO:0086002 cardiac muscle cell action potential involved in contraction
• GO:0086010 membrane depolarization during action potential
• GO:0086016 AV node cell action potential
• GO:0086043 bundle of His cell action potential
• GO:0099505 regulation of presynaptic membrane potential

Cellular Component

• GO:0001518 voltage-gated sodium channel complex
• GO:0005886 plasma membrane
• GO:0016020 membrane
• GO:0030424 axon
• GO:0034702 monoatomic ion channel complex
• GO:0042734 presynaptic membrane
• GO:0070062 extracellular exosome
• GO:0071439 clathrin complex
• GO:0098978 glutamatergic synapse

External links

• PDB: RCSB:7wfr, PDBe:7wfr, PDBj:7wfr
• PDBsum: 7wfr
• PubMed: 35858452
• UniProt: Q9Y5Y9|SCNAA_HUMAN Sodium channel protein type 10 subunit alpha (Gene Name=SCN10A)