7XSU: Cardiac sodium channel

Cardiac sodium channel in complex with LqhIII. Determined by electron microscopy at 3.4 Å resolution. Released 29 Nov 2023.

Method
Electron microscopy
Resolution
3.4 Å
Organisms
Rattus norvegicus, Recombinant vesicular stomatitis Indiana virus rVSV-G/GFP, Leiurus quinquestriatus hebraeus
Chains
2
Atoms
8,969
Mol. weight
222.24 kDa
Ligands
NAG, BMA, 6OU, 9Z9
Released
29 Nov 2023

Explore 7XSU in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7XSU contains 64 α-helices and 14 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 63 helices, 10 β-strands

ElementResiduesLengthSheet
α-helix122-1298
α-helix132-14918
α-helix156-1594
α-helix162-18019
α-helix185-1895
α-helix193-20917
α-helix220-2278
α-helix228-2336
α-helix237-25014
α-helix252-27322
α-helix276-2783
β-strand280-28341
β-strand29012
β-strand29312
α-helix305-3106
α-helix312-3143
β-strand31713
α-helix3181
β-strand32413
α-helix336-3372
β-strand340-34341
α-helix359-37113
α-helix375-38612
α-helix388-3903
α-helix391-42232
α-helix705-71612
α-helix721-73616
α-helix744-77128
α-helix777-7793
α-helix781-79717
α-helix808-82013
α-helix824-83714
α-helix841-86828
α-helix870-8734
α-helix887-89913
α-helix902-91312
α-helix915-94430
α-helix1191-120515
α-helix1207-122519
α-helix1235-127036
α-helix1272-129322
α-helix1301-13066
α-helix1307-13104
α-helix1311-13188
α-helix1320-133112
α-helix1333-135826
β-strand136714
α-helix1373-13753
β-strand138215
α-helix1383-13897
β-strand139514
α-helix1407-141913
α-helix1423-14319
β-strand143815
α-helix1439-14413
α-helix1446-14483
α-helix1449-14557
α-helix1456-14627
α-helix1463-148119
α-helix1518-152710
α-helix1530-154819
α-helix1556-158126
α-helix1587-15904
α-helix1592-160918
α-helix1611-16177
α-helix1622-16265
α-helix1627-16304
α-helix1633-16386
α-helix1644-165411
α-helix1656-168126
α-helix1699-171012
α-helix1715-17239
α-helix1747-177630
Chain B: 1 helix, 4 β-strands
ElementResiduesLengthSheet
β-strand7-826
β-strand12-1326
α-helix24-307
β-strand37-4047
β-strand44-4747

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Sodium channel protein type 5 subunit alpha,G protein/GFP fusion proteinAprotein1838Rattus norvegicus, Recombinant vesicular stomatitis Indiana virus rVSV-G/GFPB7UCZ6, P15389 (AlphaFold model)
Alpha-like toxin Lqh3Bprotein67Leiurus quinquestriatus hebraeusP56678 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>7XSU_1 Sodium channel protein type 5 subunit alpha,G protein/GFP fusion protein (chains A)
MANLLLPRGTSSFRRFTRESLAAIEKRMAEKQARGGSATSQESREGLQEEEAPRPQLDLQ
ASKKLPDLYGNPPRELIGEPLEDLDPFYSTQKTFIVLNKGKTIFRFSATNALYVLSPFHP
VRRAAVKILVHSLFSMLIMCTILTNCVFMAQHDPPPWTKYVEYTFTAIYTFESLVKILAR
GFCLHAFTFLRDPWNWLDFSVIVMAYTTEFVDLGNVSALRTFRVLRALKTISVISGLKTI
VGALIQSVKKLADVMVLTVFCLSVFALIGLQLFMGNLRHKCVRNFTELNGTNGSVEADGL
VWNSLDVYLNDPANYLLKNGTTDVLLCGNSSDAGTCPEGYRCLKAGENPDHGYTSFDSFA
WAFLALFRLMTQDCWERLYQQTLRSAGKIYMIFFMLVIFLGSFYLVNLILAVVAMAYEEQ
NQATIAETEEKEKRFQEAMEMLKKEHEALTIRGVDTVSRSSARQRALSAVSVLTSALEEL
EESHRKCPPCWNRFAQHYLIWECCPLWMSIKQKVKFVVMDPFADLTITMCIVLNTLFMAL
EHYNMTAEFEEMLQVGNLVFTGIFTAEMTFKIIALDPYYYFQQGWNIFDSIIVILSLMEL
GLSRMGNLSVLRSFRLLRVFKLAKSWPTLNTLIKIIGNSVGALGNLTLVLAIIVFIFAVV
GMQLFGKNYSELRHRISDSGLLPRWHMMDFFHAFLIIFRILCGEWIETMWDCMEVSGQSL
CLLVFLLVMVIGNLVVLNLFLALLLSSFSADNLTAPDEDGEMNNLQLALARIQRGLRFVK
RTTWDFCCGILRRRPKKPAALATHSQLPSCITAPRSPPPPEVEKVPPARKETRFEEDKRP
GQGTPGDSEPVCVPIAVAESDTEDQEEDEENGKVWWRLRKTCYRIVEHSWFETFIIFMIL
LSSGALAFEDIYLEERKTIKVLLEYADKMFTYVFVLEMLLKWVAYGFKKYFTNAWCWLDF
LIVDVSLVSLVANTLGFAEMGPIKSLRTLRALRPLRALSRFEGMRVVVNALVGAIPSIMN
VLLVCLIFWLIFSIMGVNLFAGKFGRCINQTEGDLPLNYTIVNNKSECESFNVTGELYWT
KVKVNFDNVGAGYLALLQVATFKGWMDIMYAAVDSRGYEEQPQWEDNLYMYIYFVVFIIF
GSFFTLNLFIGVIIDNFNQQKKKLGGQDIFMTEEQKKYYNAMKKLGSKKPQKPIPRPLNK
YQGFIFDIVTKQAFDVTIMFLICLNMVTMMVETDDQSPEKVNILAKINLLFVAIFTGECI
VKMAALRHYYFTNSWNIFDFVVVILSIVGTVLSDIIQKYFFSPTLFRVIRLARIGRILRL
IRGAKGIRTLLFALMMSLPALFNIGLLLFLVMFIYSIFGMANFAYVKWEAGIDDMFNFQT
FANSMLCLFQITTSAGWDGLLSPILNTGPPYCDPNLPNSNGSRGNCGSPAVGILFFTTYI
IISFLIVVNMYIAIILENFSVATEESTEPLSEDDFDMFYEIWEKFDPEATQFIEYLALSD
FADALSEPLRIAKPNQISLINMDLPMVSGDRIHCMDILFAFTKRVLGESGEMDALKIQME
EKFMAANPSKISYEPITTTLEVLFQGPGSMVSKGEELFTGVVPILVELDGDVNGHKFSVS
GEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTLTYGVQCFSRYPDHMKQHDFFKSAMPE
GYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNV
YIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKD
PNEKRDHMVLLEFVTAAGITLGMDELYKGSDYKDDDDK
Sequence of entity 2 (B), FASTA
>7XSU_2 Alpha-like toxin Lqh3 (chains B)
VRDGYIAQPENCVYHCFPGSSGCDTLCKEKGGTSGHCGFKVGHGLACWCNALPDNVGIIV
EGEKCHS

Ligands and cofactors

IDNameFormulaCopies
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O65
BMAbeta-D-mannopyranoseC6 H12 O61
6OU[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-y…C39 H76 N O8 P6
9Z9(3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-enC34 H56 O51

Primary citation

Structural Basis for Nav1.5 Opening Modulated by a Gating Modifier Toxin. Jiang, D., Catterall, W.A. To be published.

Other PDB entries of the same protein (UniProt B7UCZ6), best resolution first:

Browse structure collections

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