8EOG: PDB entry 8EOG

Structure of the human L-type voltage-gated calcium channel Cav1.2 complexed with L-leucine. Determined by electron microscopy at 3.3 Å resolution. Released 24 May 2023.

Method
Electron microscopy
Resolution
3.3 Å
Organisms
Oryctolagus cuniculus, Homo sapiens
Chains
3
Atoms
19,729
Mol. weight
316.63 kDa
Ligands
LEU, CA, NAG, WO9
Released
24 May 2023

Explore 8EOG in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8EOG contains 109 α-helices and 76 β-strands across 3 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 C: 8 helices, 7 β-strands

ElementResiduesLengthSheet
β-strand180-183424
β-strand188125
β-strand190125
α-helix191-20313
α-helix204-2085
β-strand213-216426
α-helix246-26217
β-strand267-270426
α-helix277-2793
β-strand288-292524
α-helix297-3048
α-helix310-3134
α-helix315-32713
β-strand335-337324
α-helix342-35918
Chain D: 39 helices, 62 β-strands
ElementResiduesLengthSheet
α-helix32-5423
α-helix57-6610
β-strand70-7451
α-helix77-11135
β-strand124-12522
β-strand127-12823
β-strand144-14522
β-strand152-15324
β-strand160-16124
β-strand16215
β-strand167-16933
α-helix179-18810
α-helix192-20110
β-strand208-21253
β-strand217-22043
β-strand22215
α-helix224-2263
α-helix240-2423
α-helix244-2507
β-strand257-26156
α-helix264-2663
α-helix269-28214
β-strand29117
β-strand292-29656
β-strand300-30236
β-strand31017
α-helix314-32411
α-helix335-34511
β-strand359-36466
α-helix372-3787
β-strand385-39176
α-helix399-4079
β-strand411-41556
α-helix418-4247
α-helix429-4324
α-helix434-4396
α-helix440-4434
β-strand447-44828
β-strand452-45329
β-strand460-46349
β-strand464-46528
β-strand466-46943
α-helix482-4843
β-strand486-49273
β-strand493-49539
α-helix496-5005
β-strand513-517510
β-strand522111
β-strand523-525310
α-helix533-5353
β-strand540-541212
β-strand55819
β-strand562111
α-helix571-58111
β-strand586-5951010
β-strand602-6131210
β-strand620-624510
α-helix627-6293
β-strand631-63551
α-helix640-64910
α-helix655-6573
β-strand660-661213
β-strand669114
α-helix681-69111
β-strand699114
α-helix701-71717
α-helix718-7225
β-strand731-738813
β-strand743-745313
α-helix748-7536
α-helix760-7623
α-helix764-7718
β-strand775115
β-strand776-778313
α-helix779-7813
β-strand794-802913
β-strand809-8181013
α-helix820-8289
β-strand850-855616
β-strand856117
β-strand860118
β-strand861-864416
α-helix869-8713
β-strand876118
α-helix877-8793
α-helix882-8909
β-strand894-9061319
β-strand909-910212
β-strand974-9851219
β-strand991120
β-strand994-996316
β-strand1003-1005316
β-strand1008-1009220
β-strand1013115
β-strand1015117
β-strand1016-1017220
β-strand1018-1021416
α-helix1031-10333
β-strand1038-1039219
α-helix1045-10484
α-helix1052-10543
Chain K: 62 helices, 7 β-strands
ElementResiduesLengthSheet
α-helix113-1208
α-helix124-14320
α-helix156-18126
α-helix189-20820
α-helix235-2428
α-helix243-2508
α-helix255-26511
α-helix266-2683
α-helix269-28921
β-strand299121
β-strand305121
β-strand331121
α-helix350-36011
α-helix365-37612
α-helix381-41232
α-helix421-43818
α-helix439-4479
α-helix526-54116
α-helix553-56614
α-helix569-5768
α-helix580-5834
α-helix590-5934
α-helix596-60813
α-helix613-63018
α-helix638-67235
α-helix692-70413
α-helix709-71810
α-helix730-76233
α-helix891-8977
α-helix901-91313
α-helix914-9185
α-helix928-95023
α-helix968-97912
α-helix1003-10108
α-helix1013-10153
α-helix1020-102910
α-helix1031-105020
β-strand1057-1058222
α-helix1066-10683
β-strand1072-1075423
β-strand1085-1088423
β-strand1091-1092222
α-helix1105-11128
α-helix1117-11259
α-helix1140-11423
α-helix1143-115715
α-helix1160-117011
α-helix1184-119310
α-helix1211-12144
α-helix1219-123517
α-helix1236-12383
α-helix1245-127026
α-helix1275-12784
α-helix1282-130019
α-helix1327-13348
α-helix1335-13417
α-helix1345-135511
α-helix1359-138123
α-helix1402-141413
α-helix1418-14236
α-helix1452-147726
α-helix1479-14824
α-helix1491-150313
α-helix1514-15218
α-helix1541-15455
α-helix1558-156912
α-helix1578-15847
α-helix1586-15883
α-helix1599-16024

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Voltage-dependent calcium channel subunit alpha-2/delta-1Dprotein1050Oryctolagus cuniculusP13806 (AlphaFold model)
Isoform 20 of Voltage-dependent L-type calcium channel subunit alpha-1CKprotein1499Homo sapiensQ13936 (AlphaFold model)
Voltage-dependent L-type calcium channel subunit beta-3Cprotein191Oryctolagus cuniculusP54286 (AlphaFold model)
Sequence of entity 1 (D), FASTA
>8EOG_1 Voltage-dependent calcium channel subunit alpha-2/delta-1 (chains D)
FPSAVTIKSWVDKMQEDLVTLAKTASGVHQLVDIYEKYQDLYTVEPNNARQLVEIAARDI
EKLLSNRSKALVRLALEAEKVQAAHQWREDFASNEVVYYNAKDDLDPEKNDSEPGSQRIK
PVFIDDANFRRQVSYQHAAVHIPTDIYEGSTIVLNELNWTSALDDVFKKNREEDPSLLWQ
VFGSATGLARYYPASPWVDNSRTPNKIDLYDVRRRPWYIQGAASPKDMLILVDVSGSVSG
LTLKLIRTSVSEMLETLSDDDFVNVASFNSNAQDVSCFQHLVQANVRNKKVLKDAVNNIT
AKGITDYKKGFSFAFEQLLNYNVSRANCNKIIMLFTDGGEERAQEIFAKYNKDKKVRVFT
FSVGQHNYDRGPIQWMACENKGYYYEIPSIGAIRINTQEYLDVLGRPMVLAGDKAKQVQW
TNVYLDALELGLVITGTLPVFNITGQFENKTNLKNQLILGVMGVDVSLEDIKRLTPRFTL
CPNGYYFAIDPNGYVLLHPNLQPKPIGVGIPTINLRKRRPNVQNPKSQEPVTLDFLDAEL
ENDIKVEIRNKMIDGESGEKTFRTLVKSQDERYIDKGNRTYTWTPVNGTDYSLALVLPTY
SFYYIKAKIEETITQARYSETLKPDNFEESGYTFLAPRDYCSDLKPSDNNTEFLLNFNEF
IDRKTPNNPSCNTDLINRVLLDAGFTNELVQNYWSKQKNIKGVKARFVVTDGGITRVYPK
EAGENWQENPETYEDSFYKRSLDNDNYVFTAPYFNKSGPGAYESGIMVSKAVEIYIQGKL
LKPAVVGIKIDVNSWIENFTKTSIRDPCAGPVCDCKRNSDVMDCVILDDGGFLLMANHDD
YTNQIGRFFGEIDPSLMRHLVNISVYAFNKSYDYQSVCEPGAAPKQGAGHRSAYVPSIAD
ILQIGWWATAAAWSILQQFLLSLTFPRLLEAADMEDDDFTASMSKQSCITEQTQYFFDND
SKSFSGVLDCGNCSRIFHVEKLMNTNLIFIMVESKGTCPCDTRLLIQAEQTSDGPDPCDM
VKQPRYRKGPDVCFDNNVLEDYTDCGGVSG
Sequence of entity 2 (K), FASTA
>8EOG_2 Isoform 20 of Voltage-dependent L-type calcium channel subunit alpha-1C (chains K)
PIRRACISIVEWKPFEIIILLTIFANCVALAIYIPFPEDDSNATNSNLERVEYLFLIIFT
VEAFLKVIAYGLLFHPNAYLRNGWNLLDFIIVVVGLFSAILEQATKADGANALGGKGAGF
DVKALRAFRVLRPLRLVSGVPSLQVVLNSIIKAMVPLLHIALLVLFVIIIYAIIGLELFM
GKMHKTCYNQEGIADVPAEDDPSPCALETGHGRQCQNGTVCKPGWDGPKHGITNFDNFAF
AMLTVFQCITMEGWTDVLYWVNDAVGRDWPWIYFVTLIIIGSFFVLNLVLGVLSGEFSKE
REKAKARGDFQKLREKQQLEEDLKGYLDWITQAEDIDPENEDEGMDEEKPRNMSMPTSET
ESVNTENVAGGDIEGENCGARLAHRISKSKFSRYWRRWNRFCRRKCRAAVKSNVFYWLVI
FLVFLNTLTIASEHYNQPNWLTEVQDTANKALLALFTAEMLLKMYSLGLQAYFVSLFNRF
DCFVVCGGILETILVETKIMSPLGISVLRCVRLLRIFKITRYWNSLSNLVASLLNSVRSI
ASLLLLLFLFIIIFSLLGMQLFGGKFNFDEMQTRRSTFDNFPQSLLTVFQILTGEDWNSV
MYDGIMAYGGPSFPGMLVCIYFIILFICGNYILLNVFLAIAVDNLADAESLTSAQKEEEE
EKERKKLARTASPEKKQELVEKPAVGESKEEKIELKSITADGESPPATKINMDDLQPNEN
EDKSPYPNPETTGEEDEEEPEMPVGPRPRPLSELHLKEKAVPMPEASAFFIFSSNNRFRL
QCHRIVNDTIFTNLILFFILLSSISLAAEDPVQHTSFRNHILGNADYVFTSIFTLEIILK
MTAYGAFLHKGSFCRNYFNILDLLVVSVSLISFGIQSSAINVVKILRVLRVLRPLRAINR
AKGLKHVVQCVFVAIRTIGNIVIVTTLLQFMFACIGVQLFKGKLYTCSDSSKQTEAECKG
NYITYKDGEVDHPIIQPRSWENSKFDFDNVLAAMMALFTVSTFEGWPELLYRSIDSHTED
KGPIYNYRVEISIFFIIYIIIIAFFMMNIFVGFVIVTFQEQGEQEYKNCELDKNQRQCVE
YALKARPLRRYIPKNQHQYKVWYVVNSTYFEYLMFVLILLNTICLAMQHYGQSCLFKIAM
NILNMLFTGLFTVEMILKLIAFKPKHYFCDAWNTFDALIVVGSIVDIAITEVNPAEHTQC
SPSMNAEENSRISITFFRLFRVMRLVKLLSRGEGIRTLLWTFIKSFQALPYVALLIVMLF
FIYAVIGMQVFGKIALNDTTEINRNNNFQTFPQAVLLLFRCATGEAWQDIMLACMPGKKC
APESEPSNSTEGETPCGSSFAVFYFISFYMLCAFLIINLFVAVIMDNFDYLTRDWSILGP
HHLDEFKRIWAEYDPEAKGRIKHLDVVTLLRRIQPPLGFGKLCPHRVACKRLVSMNMPLN
SDGTVMFNATLFALVRTALRIKTEGNLEQANEELRAIIKKIWKRTSMKLLDQVVPPAGD
Sequence of entity 3 (C), FASTA
>8EOG_3 Voltage-dependent L-type calcium channel subunit beta-3 (chains C)
YDVVPSMRPVVLVGPSLKGYEVTDMMQKALFDFLKHRFDGRISITRVTADLSLAKRSVLN
NPGKRTIIERSSARSSIAEVQSEIERIFELAKSLQLVVLDADTINHPAQLAKTSLAPIIV
FVKVSSPKVLQRLIRSRGKSQMKHLTVQMMAYDKLVQCPPESFDVILDENQLEDACEHLA
EYLEVYWRATH

Ligands and cofactors

IDNameFormulaCopies
LEULeucineC6 H13 N O21
CACalcium ionCa3
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O65
WO9(2R)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(dodecanoyloxy)propyl…C34 H68 N O8 P1
WNZ(2R)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(dodecanoyloxy)propyl…C29 H58 N O8 P1
CLRCholesterolC27 H46 O3

Water and common crystallization additives (NA) are not listed.

Primary citation

EMC chaperone-Ca V structure reveals an ion channel assembly intermediate. Chen, Z., Mondal, A., Abderemane-Ali, F. et al. Nature (2023) 619:410-419. DOI 10.1038/s41586-023-06175-5 · PubMed

Other PDB entries of the same protein (UniProt P13806 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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