7MIX: PDB entry 7MIX

Human N-type voltage-gated calcium channel Cav2.2 in the presence of ziconotide at 3.0 Angstrom resolution. Determined by electron microscopy at 3.0 Å resolution. Released 7 Jul 2021.

Method
Electron microscopy
Resolution
3.0 Å
Organisms
Homo sapiens, Conus magus
Chains
4
Atoms
21,652
Mol. weight
453.71 kDa
Ligands
CA, NAG, PT5, 3PE
Released
7 Jul 2021

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

Secondary structure: helices and β-sheets

7MIX contains 126 α-helices and 84 β-strands across 4 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: 72 helices, 10 β-strands

ElementResiduesLengthSheet
α-helix87-926
α-helix95-11420
α-helix119-1213
α-helix125-1317
α-helix134-14714
α-helix161-1633
α-helix165-18218
α-helix189-1924
α-helix193-1975
α-helix201-2055
α-helix207-21711
α-helix221-24424
β-strand252-25431
α-helix276-2783
β-strand282-28431
α-helix300-31011
α-helix316-32712
α-helix333-3408
α-helix341-3466
α-helix347-36317
α-helix366-40540
α-helix465-47511
α-helix482-49918
α-helix508-53629
α-helix538-5436
α-helix545-56622
α-helix575-58814
α-helix592-60413
α-helix606-63126
α-helix649-66113
α-helix665-67713
α-helix683-6853
α-helix686-73954
α-helix748-7558
α-helix767-78519
α-helix1140-11489
α-helix1150-11523
α-helix1153-116816
α-helix1178-119922
α-helix1219-123719
α-helix1244-12529
α-helix1253-12564
α-helix1258-12603
α-helix1261-12644
α-helix1266-128015
α-helix1283-130422
β-strand1309-131132
β-strand1325-133063
β-strand1333-133863
β-strand1341-134332
α-helix1351-136313
α-helix1367-137610
α-helix1393-140210
α-helix1403-14075
α-helix1408-141710
α-helix1436-144510
α-helix1461-14699
α-helix1471-148818
α-helix1497-152529
α-helix1527-15304
α-helix1536-155419
α-helix1556-15572
α-helix1566-158116
α-helix1583-159715
α-helix1600-162122
β-strand162414
α-helix1641-165313
α-helix1657-16637
β-strand166815
β-strand167014
β-strand167915
α-helix1684-170724
α-helix1708-17103
α-helix1711-17144
α-helix1725-17339
α-helix1747-17559
α-helix1767-17759
α-helix1781-17833
α-helix1795-18017
α-helix1807-18104
α-helix1814-182411
α-helix1833-18364
Chain B: 1 helix, 5 β-strands
ElementResiduesLengthSheet
β-strand216
β-strand717
α-helix10-123
β-strand1516
β-strand2117
β-strand2417
Chain C: 12 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix39-5517
β-strand62-65426
β-strand71127
β-strand86127
β-strand92-98726
β-strand103-108626
β-strand115-119526
α-helix121-13111
α-helix156-1583
β-strand172126
α-helix178-1792
β-strand180-183428
α-helix191-20717
β-strand212-215428
α-helix247-26216
β-strand266-269428
α-helix277-2804
β-strand288-292528
α-helix297-3059
α-helix309-3135
α-helix315-32713
α-helix330-3323
β-strand335-337328
α-helix342-35918
Chain D: 41 helices, 57 β-strands
ElementResiduesLengthSheet
α-helix30-4819
α-helix49-535
α-helix54-6411
β-strand68-7258
α-helix75-10935
β-strand122-12439
β-strand125-126210
β-strand142-14439
β-strand150-151211
β-strand158-159211
β-strand160112
β-strand165-167310
α-helix177-18610
α-helix187-1893
α-helix190-19910
β-strand206-210510
β-strand215-218410
β-strand220112
α-helix238-2403
α-helix242-2487
β-strand252113
β-strand255-259514
α-helix262-2643
α-helix267-28014
β-strand289115
β-strand290-294514
β-strand298-300314
β-strand308115
α-helix312-32211
α-helix333-34311
β-strand355113
β-strand357-362614
α-helix370-3767
β-strand383-389714
α-helix397-4048
β-strand409-413514
α-helix416-4183
α-helix419-4224
α-helix426-4305
α-helix432-4376
α-helix439-4413
β-strand445-446210
β-strand450-451210
β-strand458-4671010
β-strand484-4931010
α-helix494-4985
β-strand511-515516
β-strand520117
β-strand521-523316
α-helix531-5333
β-strand538-539218
β-strand560117
α-helix561-5644
α-helix569-58012
β-strand584-5931016
β-strand600-6111216
β-strand618-624716
β-strand629-63358
α-helix638-6458
α-helix650-6523
β-strand658-661419
β-strand667120
α-helix678-68811
β-strand697120
α-helix699-71517
α-helix716-7205
β-strand731-736619
β-strand740-743419
α-helix746-7483
α-helix758-7603
α-helix762-7698
β-strand773121
β-strand774-776319
α-helix777-7793
β-strand792-797619
β-strand800-801222
β-strand806-807222
β-strand810-816719
α-helix818-8269
β-strand848-854723
β-strand858124
β-strand859-861323
β-strand874124
α-helix875-8784
α-helix880-8889
β-strand892-9041325
β-strand907-908218
β-strand972-9831225
β-strand989-994623
β-strand1001-1007723
α-helix10081
β-strand1011121
β-strand1013-1019723
β-strand1036-1038325
α-helix10401
α-helix10421
α-helix1043-10464
α-helix1050-10523

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Voltage-dependent N-type calcium channel subunit alpha-1BAprotein2339Homo sapiensQ00975 (AlphaFold model)
Omega-conotoxin MVIIABprotein25Conus magusP05484 (AlphaFold model)
Voltage-dependent calcium channel subunit alpha-2/delta-1Dprotein1103Homo sapiensP54289 (AlphaFold model)
Voltage-dependent L-type calcium channel subunit beta-3Cprotein484Homo sapiensP54284 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>7MIX_1 Voltage-dependent N-type calcium channel subunit alpha-1B (chains A)
MVRFGDELGGRYGGPGGGERARGGGAGGAGGPGPGGLQPGQRVLYKQSIAQRARTMALYN
PIPVKQNCFTVNRSLFVFSEDNVVRKYAKRITEWPPFEYMILATIIANCIVLALEQHLPD
GDKTPMSERLDDTEPYFIGIFCFEAGIKIIALGFVFHKGSYLRNGWNVMDFVVVLTGILA
TAGTDFDLRTLRAVRVLRPLKLVSGIPSLQVVLKSIMKAMVPLLQIGLLLFFAILMFAII
GLEFYMGKFHKACFPNSTDAEPVGDFPCGKEAPARLCEGDTECREYWPGPNFGITNFDNI
LFAILTVFQCITMEGWTDILYNTNDAAGNTWNWLYFIPLIIIGSFFMLNLVLGVLSGEFA
KERERVENRRAFLKLRRQQQIERELNGYLEWIFKAEEVMLAEEDRNAEEKSPLDVLKRAA
TKKSRNDLIHAEEGEDRFADLCAVGSPFARASLKSGKTESSSYFRRKEKMFRFFIRRMVK
AQSFYWVVLCVVALNTLCVAMVHYNQPRRLTTTLYFAEFVFLGLFLTEMSLKMYGLGPRS
YFRSSFNCFDFGVIVGSVFEVVWAAIKPGSSFGISVLRALRLLRIFKVTKYWSSLRNLVV
SLLNSMKSIISLLFLLFLFIVVFALLGMQLFGGQFNFQDETPTTNFDTFPAAILTVFQIL
TGEDWNAVMYHGIESQGGVSKGMFSSFYFIVLTLFGNYTLLNVFLAIAVDNLANAQELTK
DEEEMEEAANQKLALQKAKEVAEVSPMSAANISIAARQQNSAKARSVWEQRASQLRLQNL
RASCEALYSEMDPEERLRFATTRHLRPDMKTHLDRPLVVELGRDGARGPVGGKARPEAAE
APEGVDPPRRHHRHRDKDKTPAAGDQDRAEAPKAESGEPGAREERPRPHRSHSKEAAGPP
EARSERGRGPGPEGGRRHHRRGSPEEAAEREPRRHRAHRHQDPSKECAGAKGERRARHRG
GPRAGPREAESGEEPARRHRARHKAQPAHEAVEKETTEKEATEKEAEIVEADKEKELRNH
QPREPHCDLETSGTVTVGPMHTLPSTCLQKVEEQPEDADNQRNVTRMGSQPPDPNTIVHI
PVMLTGPLGEATVVPSGNVDLESQAEGKKEVEADDVMRSGPRPIVPYSSMFCLSPTNLLR
RFCHYIVTMRYFEVVILVVIALSSIALAAEDPVRTDSPRNNALKYLDYIFTGVFTFEMVI
KMIDLGLLLHPGAYFRDLWNILDFIVVSGALVAFAFSGSKGKDINTIKSLRVLRVLRPLK
TIKRLPKLKAVFDCVVNSLKNVLNILIVYMLFMFIFAVIAVQLFKGKFFYCTDESKELER
DCRGQYLDYEKEEVEAQPRQWKKYDFHYDNVLWALLTLFTVSTGEGWPMVLKHSVDATYE
EQGPSPGYRMELSIFYVVYFVVFPFFFVNIFVALIIITFQEQGDKVMSECSLEKNERACI
DFAISAKPLTRYMPQNRQSFQYKTWTFVVSPPFEYFIMAMIALNTVVLMMKFYDAPYEYE
LMLKCLNIVFTSMFSMECVLKIIAFGVLNYFRDAWNVFDFVTVLGSITDILVTEIAETNN
FINLSFLRLFRAARLIKLLRQGYTIRILLWTFVQSFKALPYVCLLIAMLFFIYAIIGMQV
FGNIALDDDTSINRHNNFRTFLQALMLLFRSATGEAWHEIMLSCLSNQACDEQANATECG
SDFAYFYFVSFIFLCSFLMLNLFVAVIMDNFEYLTRDSSILGPHHLDEFIRVWAEYDPAA
CGRISYNDMFEMLKHMSPPLGLGKKCPARVAYKRLVRMNMPISNEDMTVHFTSTLMALIR
TALEIKLAPAGTKQHQCDAELRKEISVVWANLPQKTLDLLVPPHKPDEMTVGKVYAALMI
FDFYKQNKTTRDQMQQAPGGLSQMGPVSLFHPLKATLEQTQPAVLRGARVFLRQKSSTSL
SNGGAIQNQESGIKESVSWGTQRTQDAPHEARPPLERGHSTEIPVGRSGALAVDVQMQSI
TRRGPDGEPQPGLESQGRAASMPRLAAETQPVTDASPMKRSISTLAQRPRGTHLCSTTPD
RPPPSQASSHHHHHRCHRRRDRKQRSLEKGPSLSADMDGAPSSAVGPGLPPGEGPTGCRR
ERERRQERGRSQERRQPSSSSSEKQRFYSCDRFGGREPPKPKPSLSSHPTSPTAGQEPGP
HPQGSGSVNGSPLLSTSGASTPGRGGRRQLPQTPLTPRPSITYKTANSSPIHFAGAQTSL
PAFSPGRLSRGLSEHNALLQRDPLSQPLAPGSRIGSDPYLGQRLDSEASVHALPEDTLTF
EEAVATNSGRSSRTSYVSSLTSQSHPLRRVPNGYHCTLGLSSGGRARHSYHHPDQDHWC
Sequence of entity 2 (B), FASTA
>7MIX_2 Omega-conotoxin MVIIA (chains B)
CKGKGAKCSRLMYDCCTGSCRSGKC
Sequence of entity 3 (D), FASTA
>7MIX_3 Voltage-dependent calcium channel subunit alpha-2/delta-1 (chains D)
MAAGCLLALTLTLFQSLLIGPSSEEPFPSAVTIKSWVDKMQEDLVTLAKTASGVNQLVDI
YEKYQDLYTVEPNNARQLVEIAARDIEKLLSNRSKALVRLALEAEKVQAAHQWREDFASN
EVVYYNAKDDLDPEKNDSEPGSQRIKPVFIEDANFGRQISYQHAAVHIPTDIYEGSTIVL
NELNWTSALDEVFKKNREEDPSLLWQVFGSATGLARYYPASPWVDNSRTPNKIDLYDVRR
RPWYIQGAASPKDMLILVDVSGSVSGLTLKLIRTSVSEMLETLSDDDFVNVASFNSNAQD
VSCFQHLVQANVRNKKVLKDAVNNITAKGITDYKKGFSFAFEQLLNYNVSRANCNKIIML
FTDGGEERAQEIFNKYNKDKKVRVFTFSVGQHNYDRGPIQWMACENKGYYYEIPSIGAIR
INTQEYLDVLGRPMVLAGDKAKQVQWTNVYLDALELGLVITGTLPVFNITGQFENKTNLK
NQLILGVMGVDVSLEDIKRLTPRFTLCPNGYYFAIDPNGYVLLHPNLQPKPIGVGIPTIN
LRKRRPNIQNPKSQEPVTLDFLDAELENDIKVEIRNKMIDGESGEKTFRTLVKSQDERYI
DKGNRTYTWTPVNGTDYSLALVLPTYSFYYIKAKLEETITQARYSETLKPDNFEESGYTF
IAPRDYCNDLKISDNNTEFLLNFNEFIDRKTPNNPSCNADLINRVLLDAGFTNELVQNYW
SKQKNIKGVKARFVVTDGGITRVYPKEAGENWQENPETYEDSFYKRSLDNDNYVFTAPYF
NKSGPGAYESGIMVSKAVEIYIQGKLLKPAVVGIKIDVNSWIENFTKTSIRDPCAGPVCD
CKRNSDVMDCVILDDGGFLLMANHDDYTNQIGRFFGEIDPSLMRHLVNISVYAFNKSYDY
QSVCEPGAAPKQGAGHRSAYVPSVADILQIGWWATAAAWSILQQFLLSLTFPRLLEAVEM
EDDDFTASLSKQSCITEQTQYFFDNDSKSFSGVLDCGNCSRIFHGEKLMNTNLIFIMVES
KGTCPCDTRLLIQAEQTSDGPNPCDMVKQPRYRKGPDVCFDNNVLEDYTDCGGVSGLNPS
LWYIIGIQFLLLWLVSGSTHRLL
Sequence of entity 4 (C), FASTA
>7MIX_4 Voltage-dependent L-type calcium channel subunit beta-3 (chains C)
MYDDSYVPGFEDSEAGSADSYTSRPSLDSDVSLEEDRESARREVESQAQQQLERAKHKPV
AFAVRTNVSYCGVLDEECPVQGSGVNFEAKDFLHIKEKYSNDWWIGRLVKEGGDIAFIPS
PQRLESIRLKQEQKARRSGNPSSLSDIGNRRSPPPSLAKQKQKQAEHVPPYDVVPSMRPV
VLVGPSLKGYEVTDMMQKALFDFLKHRFDGRISITRVTADLSLAKRSVLNNPGKRTIIER
SSARSSIAEVQSEIERIFELAKSLQLVVLDADTINHPAQLAKTSLAPIIVFVKVSSPKVL
QRLIRSRGKSQMKHLTVQMMAYDKLVQCPPESFDVILDENQLEDACEHLAEYLEVYWRAT
HHPAPGPGLLGPPSAIPGLQNQQLLGERGEEHSPLERDSLMPSDEASESSRQAWTGSSQR
SSRHLEEDYADAYQDLYQPHRQHTSGLPSANGHDPQDRLLAQDSEHNHSDRNWQRNRPWP
KDSY

Ligands and cofactors

IDNameFormulaCopies
CACalcium ionCa2
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O63
PT5[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4…C47 H85 O19 P31
3PE1,2-Distearoyl-sn-glycerophosphoethanolamineC41 H82 N O8 P2
CLRCholesterolC27 H46 O5
Y01Cholesterol hemisuccinateC31 H50 O42

Primary citation

Structure of human Ca v 2.2 channel blocked by the painkiller ziconotide. Gao, S., Yao, X., Yan, N. Nature (2021) 596:143-147. DOI 10.1038/s41586-021-03699-6 · PubMed

Other PDB entries of the same protein (UniProt Q00975 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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