Structure of PDB 6nt4 Chain A

Receptor sequence

>6nt4A (length=1278) Species: 6978,9606

ANKDRDGSAHPDQALEQGSRLPARMRNIFPAELASKKTFVVVTKAGDFSG
EKSLWMLDPFTPIRRVAISTMVQPIFSYFIMITILIHCIFMIMPATQTTY
ILELVFLSIYTIEVVVKVLARGFILHPFAYLRDPWNWLDFLVTLIGYITL
VVDLGHLYALRAFRVLRSWRTVTIVPGWRTIVDALSLSITSLKDLVLLLL
FSLSVFALIGLQLFMGNLKHKCVKHFPADGSWGNFTDERWFNYTSNSSHW
YIPDDWIEYPLCGNSSGAGMCPPGYTCLQGYGGNPNYGYTSFDTFGWAFL
SVFRLVTLDYWEDLYQLALRSAGPWHILFFIIVVFYGTFCFLNFILAVVV
MSYTHMVKRADEEKAAECVPWQKLQGAIGAVVLSPFFELFIAVIIVLNIT
FMALDHHDMNIEFERILRTGNYIFTSIYIVEAVLKIIALSPKFYFKDSWN
VFDFIIVVFAILELGLEGVQSVFRSFRLLRVFRLAKFWPTLNNFMSVMTK
SYGAFVNVMYVMFLLLFIFAIIGMQLFGMNYIDNMERFPDGDLPRWNFTD
FLHSFMIVFRALCGEWIESMWDCMLVGDWSCIPFFVAVFFVGNLVILNLL
IALLLNNYGSVQRMWSNIRRVCFLLAKNKYFQKFVTAVLVITSVLLALED
IYLPQRPVLVNITLYVDYVLTAFFVIEMIIMLFAVGFKKYFTSKWYWLDF
IVVVAYLLNFVLMCAGIEALQTLRLLRVFRLFRPLSKVNGMQVVTSTLVE
AVPHIFNVILVGIFFWLVFAIMGVQLFAGKFYKCVDENSTVLSHEITMDR
NDCLHENYTWENSPMNFDHVGNAYLSLLQVATFKGWLQIMNDAIDSREVH
KQPIRETNIYMYLYFIFFIVFGSFFILKLFVCILIDIFRQQRRKAEGLSA
TDSRTQLIYRRAVMRTMSAKPVKRIPKPGNKIQGCIFDLVTNQAFDISIM
VLICLNMVTMMVEKEGQSQHMTEVLYWINVVFIILFTGECVLKLISLRHY
YFTVGWNIFDFVVVIISIVGMFLADLIETYFVSPTLFRVIRLARIGRILR
LVKGAKGIRLLLLALRKALRTLFNVSFLLFVIMFVYAVFGMEFFMHIRDA
GAIDDVYNFKTFGQSIILLFQLATSAGWDGVYFAIANEEDCRAPDHELGY
PGNCGSRALGIAYLVSYLIITCLVVINMYAAVILDYVLEVYEDSKEGLTD
DDYDMFFEVWQQFDPEATQYIRYDQLSELLEALQPPLQVQKPNKYKILSM
NIPICKDDHIFYKDVLEALVKDVFSRRG

3D structure

• PDB: 6nt4 Structural basis of alpha-scorpion toxin action on Na v channels.
• Chain: A
• Resolution: 3.5 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	76F	A	W391 Y1257	W325 Y1030
BS02	76F	A	S582 W583 M631 T635	S448 W449 M495 T499
BS03	76F	A	W922 F959 T972 V976	W695 F732 T745 V749
BS04	76F	A	H1046 R1384	H819 R1157
BS05	76F	A	W363 F365 W715 I718	W297 F299 W579 I582
BS06	AJP	A	F996 M999 L1003 N1085 M1088 F1094	F769 M772 L776 N858 M861 F867
BS07	Y01	A	W391 I393 G1340	W325 I327 G1113

Gene Ontology

Molecular Function

• GO:0005216 monoatomic ion channel activity
• GO:0005248 voltage-gated sodium channel activity
• GO:0005261 monoatomic cation channel activity

Biological Process

• GO:0006811 monoatomic ion transport
• GO:0006814 sodium ion transport
• GO:0055085 transmembrane transport

Cellular Component

• GO:0001518 voltage-gated sodium channel complex
• GO:0005886 plasma membrane
• GO:0016020 membrane

External links

• PDB: RCSB:6nt4, PDBe:6nt4, PDBj:6nt4
• PDBsum: 6nt4
• PubMed: 30733386
• UniProt: D0E0C2|SCNA1_PERAM Sodium channel protein PaFPC1;
  Q15858|SCN9A_HUMAN Sodium channel protein type 9 subunit alpha (Gene Name=SCN9A)