Structure of PDB 7xve Chain A

Receptor sequence

>7xveA (length=1276) Species: 9606 (Homo sapiens)

GPQSFVHFTKQSLALIEQRIAERKSKEPKPSSDLEAGKQLPFIYGDIPPG
MVSEPLEDLDPYYADKKTFIVLNKGKTIFRFNATPALYMLSPFSPLRRIS
IKILVHSLFSMLIMCTILTNCIFMTMNNPPDWTKNVKYTFTGIYTFESLV
KILARGFCVGEFTFLRDPWNWLDFVVIVFAYLTEFVNLGNVSALRTFRVL
RALKTISVIPGLKTIVGALIQSVKKLSDVMILTVFCLSVFALIGLQLFMG
NLKHKCFRNSLENNETLESIMNTLESEEDFRKYFYYLEGSKDALLCGFST
DSGQCPEGYTCVKIGRNPDYGYTSFDTFSWAFLALFRLMTQDYWENLYQQ
TLRAAGKTYMIFFVVVIFLGSFYLINLILAVVAMAYEEQNQANIEEAKQK
ELEFQQMLCSPYWIKFKKCIYFIVMDPFVDLAITICIVLNTLFMAMEHHP
MTEEFKNVLAIRNLVFTGIFAAEMVLKLIAMDPYEYFQVGWNIFDSLIVT
LSLVELFGLSVLRSFRLLRVFKLAKSWPTLNMLIKIIGNSVGAFGNLMLV
LFIIVFIFAVVGMQLFGKSYKECVCKINDDCTLPRWHMNDFFHSFLIVFR
VLCGEWIETMWDCMEVAGQAMCLIFYMMVFFIGNLVVLNLFLALLLSSFS
SDANNLQIAVTRIKKGINYVKQTLREFILKAFGKIWWNIRKTCYKIVEHS
WFESFIVLMILLSSGALAFEDIYIERKKTIKIILEYADKIFTYIFILEML
LKWIAYGYKTYFTNAWCWLDFLIVDVSLVTLVANTLGYSDLGPIKSLRTL
RALRPLRALSRFEGMRVVVNALIGAIPSIMNVLLVCLIFWLIFSIMGVNL
FAGKFYECINTTDGSRFPASQVPNRSECFALMNVSQNVRWKNLKVNFDNV
GLGYLSLLQVATFKGWTIIMYAAVDSVNVDKQPKYEYSLYMYIYFIFFII
FGSFFTLNLFICVIIDNFNQQKKKLGGQDIFMTEEQKKYYNAMKKLGSKK
PQKPIPRPGNKIQGCIFDLVTNQAFDISIMVLICLNMVTMMVEKEGQSQH
MTEVLYWINVVFIILFTGECVLKLISLRHYYFTVGWNIFDFVVVIISIVG
MFLADLIETYFVSPTLFRVIRLARIGRILRLVKGAKGIRTLLFALMMSLP
ALFNIGLLLFLVMFIYAIFGMSNFAYVKKEDGINDMFNFETFGNSMICLF
QITTSAGWDGLLAPILNSKPPDCDPKKVHPGSSVEGDCGNPSVGIFYFVS
YIIISFLVVVNMYIAVILENFSVATE

3D structure

• PDB: 7xve Unwinding and spiral sliding of S4 and domain rotation of VSD during the electromechanical coupling in Na v 1.7.
• Chain: A
• Resolution: 2.7 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	CLR	A	G867 N868 F874	G545 N546 F552
BS02	LPE	A	M763 F772	M446 F455
BS03	LPE	A	P1733 S1734 I1737	P1241 S1242 I1245
BS04	1PW	A	F1452 I1744 I1745 F1748	F960 I1252 I1253 F1256
BS05	LPE	A	T1291 Y1658 F1661 N1665 V1735	T799 Y1166 F1169 N1173 V1243
BS06	LPE	A	A1257 W1258 L1295 N1312 I1315	A765 W766 L803 N820 I823
BS07	LPE	A	T1475 Y1481 F1645	T983 Y989 F1153
BS08	LPE	A	Y1481 A1484	Y989 A992
BS09	LPE	A	D320 K376	D301 K357
BS10	LPE	A	D1213 Y1215 T1683	D721 Y723 T1191
BS11	LPE	A	L1203 S1206 A1210 F1211 L1649 F1652 L1653 F1656	L711 S714 A718 F719 L1157 F1160 L1161 F1164
BS12	CLR	A	M1338 L1342 S1430 Y1432 M1433 I1435 Y1436	M846 L850 S938 Y940 M941 I943 Y944
BS13	CLR	A	T1255 A1257 W1260	T763 A765 W768
BS14	CLR	A	Y1250 K1251 F1254	Y758 K759 F762
BS15	LPE	A	W1178 W1179 R1182	W686 W687 R690
BS16	LPE	A	R1182 W1245 I1246 Y1250	R690 W753 I754 Y758
BS17	LPE	A	Y157 I162	Y138 I143
BS18	P5S	A	L1566 I1567	L1074 I1075
BS19	LPE	A	I1188 H1191 F1194	I696 H699 F702

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:0005515 protein binding

Biological Process

• GO:0006811 monoatomic ion transport
• GO:0006814 sodium ion transport
• GO:0006954 inflammatory response
• GO:0007623 circadian rhythm
• GO:0009636 response to toxic substance
• GO:0009791 post-embryonic development
• GO:0019228 neuronal action potential
• GO:0019233 sensory perception of pain
• GO:0034220 monoatomic ion transmembrane transport
• GO:0035725 sodium ion transmembrane transport
• GO:0048266 behavioral response to pain
• GO:0050965 detection of temperature stimulus involved in sensory perception of pain
• GO:0050974 detection of mechanical stimulus involved in sensory perception
• GO:0055085 transmembrane transport
• GO:0086002 cardiac muscle cell action potential involved in contraction
• GO:0098870 action potential propagation

Cellular Component

• GO:0001518 voltage-gated sodium channel complex
• GO:0005886 plasma membrane
• GO:0016020 membrane
• GO:0030424 axon
• GO:0033268 node of Ranvier
• GO:0034702 monoatomic ion channel complex
• GO:0042995 cell projection
• GO:0043005 neuron projection
• GO:0043679 axon terminus

External links

• PDB: RCSB:7xve, PDBe:7xve, PDBj:7xve
• PDBsum: 7xve
• PubMed: 35878056
• UniProt: Q15858|SCN9A_HUMAN Sodium channel protein type 9 subunit alpha (Gene Name=SCN9A)