7MIY: PDB entry 7MIY

Human N-type voltage-gated calcium channel Cav2.2 at 3.1 Angstrom resolution. Determined by electron microscopy at 3.1 Å resolution. Released 7 Jul 2021.

Method
Electron microscopy
Resolution
3.1 Å
Organism
Homo sapiens
Chains
3
Atoms
21,483
Mol. weight
451.16 kDa
Ligands
NAG, CA, Y01, CLR
Released
7 Jul 2021

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

Secondary structure: helices and β-sheets

7MIY contains 131 α-helices and 79 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 A: 78 helices, 12 β-strands

ElementResiduesLengthSheet
α-helix88-903
α-helix95-11319
α-helix119-1213
α-helix125-1317
α-helix134-15219
α-helix161-1633
α-helix165-18117
α-helix189-1924
α-helix194-1963
α-helix198-2003
α-helix201-2055
α-helix207-21711
α-helix221-24424
β-strand251-25441
β-strand282-28541
α-helix300-31112
α-helix316-32712
α-helix333-3408
α-helix341-3466
α-helix347-36317
α-helix366-39631
α-helix467-47812
α-helix482-49918
α-helix508-52821
α-helix531-5344
α-helix538-5414
α-helix545-56319
α-helix574-58815
α-helix592-60413
α-helix606-63126
α-helix640-6423
α-helix649-66113
α-helix665-67511
α-helix683-6853
α-helix686-69712
α-helix700-74041
α-helix748-7547
α-helix759-7624
α-helix767-78519
α-helix1140-11434
α-helix1153-116816
α-helix1178-120225
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-strand1325-132843
β-strand1335-133843
β-strand1341-134332
α-helix1351-136313
α-helix1367-137610
β-strand137914
β-strand138214
α-helix1393-14008
α-helix1401-14077
α-helix1408-14169
α-helix1419-14213
α-helix1436-144510
α-helix1461-14699
α-helix1471-148616
α-helix1497-152529
α-helix1527-15304
α-helix1534-155421
α-helix1556-15572
α-helix1568-15725
α-helix1574-15774
α-helix1586-159611
α-helix1600-162122
β-strand162415
α-helix1625-16262
α-helix1641-165313
α-helix1657-16626
β-strand1668-166926
β-strand167015
α-helix16711
β-strand1678-167926
α-helix1684-170926
α-helix1711-17144
α-helix1725-173612
α-helix1747-17559
α-helix1767-17759
α-helix1781-17833
α-helix1791-180212
α-helix1807-18104
α-helix1814-182411
α-helix1833-18364
Chain C: 12 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix39-5416
β-strand62-6657
β-strand7118
β-strand8417
β-strand8618
β-strand92-9547
β-strand103-10867
β-strand115-11957
α-helix121-13111
α-helix156-1583
β-strand171-17337
β-strand180-18349
α-helix191-20717
β-strand212-21549
α-helix247-2526
α-helix254-2618
β-strand266-26949
α-helix277-2804
β-strand288-29259
α-helix297-3059
α-helix309-3124
α-helix317-32610
α-helix330-3323
β-strand335-33739
α-helix342-35918
Chain D: 41 helices, 54 β-strands
ElementResiduesLengthSheet
α-helix30-4819
α-helix49-535
α-helix55-6410
β-strand68-72510
α-helix75-10935
β-strand122-123211
β-strand125-126212
β-strand142-143211
β-strand150-151213
β-strand158-159213
β-strand160114
β-strand165-167312
α-helix177-1859
α-helix186-1883
α-helix189-19911
β-strand206-210512
β-strand215-218412
β-strand220114
α-helix238-2403
α-helix242-2487
β-strand252-259815
α-helix262-2643
α-helix267-28014
β-strand289116
β-strand291-294415
β-strand298-300315
β-strand308116
α-helix312-32211
α-helix333-34311
β-strand355-362815
α-helix370-3767
β-strand383-389715
α-helix397-4059
β-strand409-413515
α-helix416-4183
α-helix419-4224
α-helix426-4305
α-helix432-4376
α-helix439-4413
β-strand445-446212
β-strand450-451212
β-strand458-4671012
β-strand484-4931012
α-helix494-5007
β-strand511-515517
β-strand520118
β-strand521-523317
α-helix531-5333
β-strand538-539219
β-strand560118
α-helix561-5644
α-helix569-58012
β-strand584-5931017
β-strand599120
β-strand600-6111217
β-strand618-624717
β-strand629-633510
α-helix638-64710
α-helix650-6523
α-helix653-6564
β-strand658-661421
β-strand667122
α-helix677-68711
β-strand697122
α-helix701-71616
α-helix720-7223
β-strand729-736821
β-strand740-743421
α-helix746-7494
α-helix758-7603
α-helix762-7698
β-strand774-776321
β-strand792-797621
β-strand800-801223
β-strand806-807223
β-strand810-816721
α-helix818-8269
β-strand848-853624
β-strand858125
β-strand859124
β-strand874125
α-helix875-8773
α-helix880-8889
β-strand892-9041320
β-strand907-908219
β-strand972-9831220
β-strand989-994624
β-strand1001-1007724
α-helix10081
β-strand1014-1019624
α-helix1029-10313
β-strand1036-1038320
α-helix10401
α-helix10421
α-helix1050-10523

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Voltage-dependent N-type calcium channel subunit alpha-1BAprotein2339Homo sapiensQ00975 (AlphaFold model)
Voltage-dependent L-type calcium channel subunit beta-3Cprotein484Homo sapiensP54284 (AlphaFold model)
Voltage-dependent calcium channel subunit alpha-2/delta-1Dprotein1103Homo sapiensP54289 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>7MIY_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 (C), FASTA
>7MIY_2 Voltage-dependent L-type calcium channel subunit beta-3 (chains C)
MYDDSYVPGFEDSEAGSADSYTSRPSLDSDVSLEEDRESARREVESQAQQQLERAKHKPV
AFAVRTNVSYCGVLDEECPVQGSGVNFEAKDFLHIKEKYSNDWWIGRLVKEGGDIAFIPS
PQRLESIRLKQEQKARRSGNPSSLSDIGNRRSPPPSLAKQKQKQAEHVPPYDVVPSMRPV
VLVGPSLKGYEVTDMMQKALFDFLKHRFDGRISITRVTADLSLAKRSVLNNPGKRTIIER
SSARSSIAEVQSEIERIFELAKSLQLVVLDADTINHPAQLAKTSLAPIIVFVKVSSPKVL
QRLIRSRGKSQMKHLTVQMMAYDKLVQCPPESFDVILDENQLEDACEHLAEYLEVYWRAT
HHPAPGPGLLGPPSAIPGLQNQQLLGERGEEHSPLERDSLMPSDEASESSRQAWTGSSQR
SSRHLEEDYADAYQDLYQPHRQHTSGLPSANGHDPQDRLLAQDSEHNHSDRNWQRNRPWP
KDSY
Sequence of entity 3 (D), FASTA
>7MIY_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

Ligands and cofactors

IDNameFormulaCopies
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O63
CACalcium ionCa2
Y01Cholesterol hemisuccinateC31 H50 O43
CLRCholesterolC27 H46 O4
3PE1,2-Distearoyl-sn-glycerophosphoethanolamineC41 H82 N O8 P2
PT5[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4…C47 H85 O19 P31

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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