Structure of PDB 6nt3 Chain A Binding Site BS01

Receptor Information
>6nt3 Chain A (length=1278) Species: 6978,9606 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ANKDRDGSAHPDQALEQGSRLPARMRNIFPAELASNKKTFVVVTKASGEK
SLWMLDPFTPIRRVAISTMVQPIFSYFIMITILIHCIFMIMPATQTTYIL
ELVFLSIYTIEVVVKVLARGFILHPFAYLRDPWNWLDFLVTLIGYITLVV
DLGHLYALRAFRVLRSWRTVTIVPGWRTIVDALSLSITSLKDLVLLLLFS
LSVFALIGLQLFMGNLKHKCVKHFPADGSWGNFTDERWFNYTSNSSHWYI
PDDWIEYPLCGNSSGAGMCPPGYTCLQGYGGNPNYGYTSFDTFGWAFLSV
FRLVTLDYWEDLYQLALRSAGPWHILFFIIVVFYGTFCFLNFILAVVVMS
YTHMVKRADEEKAAECVPWQKLQGAIGAVVLSPFFELFIAVIIVLNITFM
ALDHHDMNIEFERILRTGNYIFTSIYIVEAVLKIIALSPKFYFKDSWNVF
DFIIVVFAILELGLEGVQGLSVFRSFRLLRVFRLAKFWPTLNNFMSVMTK
SYGAFVNVMYVMFLLLFIFAIIGMQLFGMNYIDNMERFPDGDLPRWNFTD
FLHSFMIVFRALCGEWIESMWDCMLVGDWSCIPFFVAVFFVGNLVILNLL
IALLLNNYGSVQRMWSNIRRVCFLLAKNKYFQKFVTAVLVITSVLLALED
IYLPQRPVLVNITLYVDYVLTAFFVIEMIIMLFAVGFKKYFTSKWYWLDF
IVVVAYLLNFVLMCAGIEALQTLRLLRVFRLFRPLSKVNGMQVVTSTLVE
AVPHIFNVILVGIFFWLVFAIMGVQLFAGKFYKCVDENSTVLSHEITMDR
NDCLHENYTWENSPMNFDHVGNAYLSLLQVATFKGWLQIMNDAIDSREVH
KQPIRETNIYMYLYFIFFIVFGSFFILKLFVCILIDIFRQQRRKAEGLSA
TDSRTQLIYRRAVMRTMSAKPVKRIPKPGNKIQGCIFDLVTNQAFDISIM
VLICLNMVTMMVEKEGQSQHMTEVLYWINVVFIILFTGECVLKLISLRHY
YFTVGWNIFDFVVVIISIVGMFLADLIETYFVSPTLFRVIRLARIGRILR
LVKGAKGIRLLLLALRKALRTLFNVSFLLFVIMFVYAVFGMEFFMHIRDA
GAIDDVYNFKTFGQSIILLFQLATSAGWDGVYFAIANEEDCRAPDHELGY
PGNCGSRALGIAYLVSYLIITCLVVINMYAAVILDYVLEVYEDSKEGLTD
DDYDMFFEVWQQFDPEATQYIRYDQLSELLEALQPPLQVQKPNKYKILSM
NIPICKDDHIFYKDVLEALVKDVFSRRG
Ligand information
Ligand ID76F
InChIInChI=1S/C41H76NO8P/c1-3-5-7-9-11-13-15-17-19-21-23-25-27-29-31-33-40(43)47-37-39(38-49-51(45,46)48-36-35-42)50-41(44)34-32-30-28-26-24-22-20-18-16-14-12-10-8-6-4-2/h12-15,18,20,39H,3-11,16-17,19,21-38,42H2,1-2H3,(H,45,46)/b14-12?,15-13+,20-18?/t39-/m1/s1
InChIKeySUGLKZVXTGKYMP-QNGDKYGQSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7CCCCCCC=CCCCCCCCCCC(=O)OCC(COP(=O)(O)OCCN)OC(=O)CCCCCCCC=CCC=CCCCCC
OpenEye OEToolkits 2.0.7CCCCCC/C=C/CCCCCCCCCC(=O)OC[C@H](COP(=O)(O)OCCN)OC(=O)CCCCCCCC=CCC=CCCCCC
ACDLabs 12.01NCCOP(O)(=O)OCC(COC(=O)CCCCCCCCC\C=C\CCCCCC)OC(=O)CCCCCCC/C=C\C\C=C\CCCCC
CACTVS 3.385CCCCCCC=CCCCCCCCCCC(=O)OC[CH](CO[P](O)(=O)OCCN)OC(=O)CCCCCCCC=CCC=CCCCCC
CACTVS 3.385CCCCCC\C=C\CCCCCCCCCC(=O)OC[C@H](CO[P](O)(=O)OCCN)OC(=O)CCCCCCC\C=C/C/C=C/CCCCC
FormulaC41 H76 N O8 P
Name(7E,21R,24S)-27-amino-24-hydroxy-18,24-dioxo-19,23,25-trioxa-24lambda~5~-phosphaheptacos-7-en-21-yl (9Z,12E)-octadeca-9,12-dienoate;
DOPE
ChEMBL
DrugBank
ZINC
PDB chain6nt3 Chain A Residue 1616 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6nt3 Cryo-EM structures of a human-cockroach hybrid Nav channel in the presence and absence of the alpha-scorpion toxin AaH2.
Resolution3.4 Å
Binding residue
(original residue number in PDB)
K921 W922 F956 F959
Binding residue
(residue number reindexed from 1)
K694 W695 F729 F732
Annotation score1
Enzymatic activity
Enzyme Commision number ?
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

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:6nt3, PDBe:6nt3, PDBj:6nt3
PDBsum6nt3
PubMed
UniProtD0E0C2|SCNA1_PERAM Sodium channel protein PaFPC1;
Q15858|SCN9A_HUMAN Sodium channel protein type 9 subunit alpha (Gene Name=SCN9A)

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