2023-04-12 REL RCSB RCSB RCSB 2022-11-03 2023-04-12 2023-04-12 2023-04-12 Not funded Structure of VSD4-NaV1.7-NaVPas channel chimera bound to the acylsulfonamide inhibitor GDC-0310 Kschonsak M Jao CC Arthur CP Rohou AL Bergeron P Ortwine D McKerall SJ Hackos DH Deng L Chen J Sutherlin D Dragovich PS Volgraf M Wright MR Payandeh J Ciferri C Tellis JC Kschonsak M Jao CC Arthur CP Rohou AL Bergeron P Ortwine DF McKerrall SJ Hackos DH Deng L Chen J Li T Dragovich PS Volgraf M Wright MR Payandeh J Ciferri C Tellis JC Cryo-EM reveals an unprecedented binding site for Na V 1.7 inhibitors enabling rational design of potent hybrid inhibitors. Elife US 12 2023 36975198 doi:10.7554/eLife.84151 2050-084X EMD-28777 associated EM volume
Structure of VSD4-NaV1.7-NaVPas channel chimera bound to the acylsulfonamide inhibitor GDC-0310
 8f0q FULLOVERLAP Structure of VSD4-NaV1.7-NaVPas channel chimera bound to the acylsulfonamide inhibitor GDC-0310 Structure of VSD4-NaV1.7-NaVPas channel chimera bound to the acylsulfonamide inhibitor GDC-0310 0 1
Chimeric construct of human Nav1.7 VSD4 and the NavPaS channel from American cockroach Periplaneta americana
Homo sapiens Sodium channel protein PaFPC1,Sodium channel protein type 9 subunit alpha chimera Homo sapiens 0.18448190599999997
Chimeric construct of human Nav1.7 VSD4 and the NavPaS channel from American cockroach Periplaneta americana
1 Homo sapiens LEVO MWSHPQFEKGGGSGGGSGGSAWSHPQFEKGGSGGDYKDDDDKGGSGGDYKDDDDKMADNSPLIREERQRLFRPYTRAMLT APSAQPAKENGKTEENKDNSRDKGRGANKDRDGSAHPDQALEQGSRLPARMRNIFPAELASTPLEDFDPFYKNKKTFVVV TKAGDIFRFSGEKSLWMLDPFTPIRRVAISTMVQPIFSYFIMITILIHCIFMIMPATQTTYILELVFLSIYTIEVVVKVL ARGFILHPFAYLRDPWNWLDFLVTLIGYITLVVDLGHLYALRAFRVLRSWRTVTIVPGWRTIVDALSLSITSLKDLVLLL LFSLSVFALIGLQLFMGNLKHKCVKHFPADGSWGNFTDERWFNYTSNSSHWYIPDDWIEYPLCGNSSGAGMCPPGYTCLQ GYGGNPNYGYTSFDTFGWAFLSVFRLVTLDYWEDLYQLALRSAGPWHILFFIIVVFYGTFCFLNFILAVVVMSYTHMVKR ADEEKAAERELKKEKKAASVANNTANGQEQTTIEMNGDEAVVIDNNDQAARQQSDPETPAPSVTQRLTDFLCVWDCCVPW QKLQGAIGAVVLSPFFELFIAVIIVLNITFMALDHHDMNIEFERILRTGNYIFTSIYIVEAVLKIIALSPKFYFKDSWNV FDFIIVVFAILELGLEGVQGLSVFRSFRLLRVFRLAKFWPTLNNFMSVMTKSYGAFVNVMYVMFLLLFIFAIIGMQLFGM NYIDNMERFPDGDLPRWNFTDFLHSFMIVFRALCGEWIESMWDCMLVGDWSCIPFFVAVFFVGNLVILNLLIALLLNNYG SFCTSPTSDEEDSKDEDALAQIVRIFKRFKPNLNAVKLSPMKPDSEDIVESQEIQGNNIADAEDVLAGEFPPDCCCNAFY KCFPSRPARDSSVQRMWSNIRRVCFLLAKNKYFQKFVTAVLVITSVLLALEDIYLPQRPVLVNITLYVDYVLTAFFVIEM IIMLFAVGFKKYFTSKWYWLDFIVVVAYLLNFVLMCAGIEALQTLRLLRVFRLFRPLSKVNGMQVVTSTLVEAVPHIFNV ILVGIFFWLVFAIMGVQLFAGKFYKCVDENSTVLSHEITMDRNDCLHENYTWENSPMNFDHVGNAYLSLLQVATFKGWLQ IMNDAIDSREVHKQPIRETNIYMYLYFIFFIVFGSFFILKLFVCILIDIFRQQRRKAEGLSATDSRTQLIYRRAVMRTMS AKPVKRIPKPGNKIQGCIFDLVTNQAFDISIMVLICLNMVTMMVEKEGQSQHMTEVLYWINVVFIILFTGECVLKLISLR HYYFTVGWNIFDFVVVIISIVGMFLADLIETYFVSPTLFRVIRLARIGRILRLVKGAKGIRLLLLALRKALRTLFNVSFL LFVIMFVYAVFGMEFFMHIRDAGAIDDVYNFKTFGQSIILLFQLATSAGWDGVYFAIANEEDCRAPDHELGYPGNCGSRA LGIAYLVSYLIITCLVVINMYAAVILDYVLEVYEDSKEGLTDDDYDMFFEVWQQFDPEATQYIRYDQLSELLEALQPPLQ VQKPNKYKILSMNIPICKDDHIFYKDVLEALVKDVFSRRGSPVEAGDVQAPNVDEAEYKPVSSTLQRQREEYCVRLIQNA WRKHKQQN beta-D-mannopyranose 0.000180156 1 BMA 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 2 NAG 5-cyclopropyl-4-({1-[(1S)-1-(3,5-dichlorophenyl)ethyl]piperidin-4-yl}methoxy)-2-fluoro-N-(methanesulfonyl)benzamide 0.0005434779999999999 1 X7R 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine 0.000744034 5 PEE CHOLESTEROL HEMISUCCINATE 0.000486726 1 Y01 water 1.8015e-05 78 HOH singleParticle particle 2 7.5 25.0 HEPES HEPES 200.0 NaCl sodium chloride UltrAuFoil R0./1 GOLD 300
Grids were incubated with a thiol reactive, self-assembling reaction mixture of 4mM monothiolalkane(C11)PEG6-OH (11-mercaptoundecyl) hexaethyleneglycol (SPT-0011P6, SensoPath Technologies, Inc., Bozeman, MT). Grids were incubated with this self-assembled monolayer (SAM) solution for 24 hours and afterwards rinsed with EtOH.
 ETHANE 100 277.15 FEI VITROBOT MARK IV
The sample was reconstituted into lipid nanodiscs (MSP1E3D1 in 3POPC:1POPE:1POPG) and was monodisperse. The sample was crosslinked with 0.05% glutaraldehyde for 10 minutes at RT, then quenched with 1M Tris pH7.0.
 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.5 1.5 GATAN K3 BIOQUANTUM (6k x 4k) 3.0 60.0 1 2253983
template-matching particle picking with a 30A low-pass filtered template
 C1 2.5 FSC 0.143 CUT-OFF PHENIX 1.20
A score threshold was applied, so that only the best-scoring particle images would be included in the 3D reconstruction at each cycle.
795792 OTHER cisTEM 1.02 OTHER cisTEM 1.02
No data beyond 3.4 A were used in the refinements
 100 RELION 3.1 emd_28777.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 120 141 133 156 130 129 133 141 120 111.454 118.158 100.56 90.0 90.0 90.0 Z Y X -8.534427 21.089323 2.4730908e-11 1.0 0.838 0.838 0.838 0.9 AUTHOR Density modified map used for model refinements FLEXIBLE FIT REAL emd_28777_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 335.2 335.2 335.2 90.0 90.0 90.0 X Y Z -9.376894 20.64935 -0.008001183 0.43606782 0.83800006 0.83800006 0.83800006 AUTHOR non-modified, full map emd_28777_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 335.2 335.2 335.2 90.0 90.0 90.0 X Y Z -12.152746 19.719368 -0.049042128 0.7229165 0.83800006 0.83800006 0.83800006 AUTHOR half-map2 emd_28777_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 400 400 400 0 0 0 400 400 400 335.2 335.2 335.2 90.0 90.0 90.0 X Y Z -12.067083 21.746965 -0.049814273 0.7252455 0.83800006 0.83800006 0.83800006 AUTHOR half-map1