3JBR: PDB entry 3JBR

Cryo-EM structure of the rabbit voltage-gated calcium channel Cav1.1 complex at 4.2 angstrom. Determined by electron microscopy at 4.2 Å resolution. Released 30 Dec 2015.

Method
Electron microscopy
Resolution
4.2 Å
Organisms
Oryctolagus cuniculus, Rattus norvegicus
Chains
4
Atoms
16,467
Mol. weight
394.53 kDa
Ligands
BMA, NAG, CA
Released
30 Dec 2015

Explore 3JBR in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3JBR contains 112 α-helices and 55 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: 64 helices, 2 β-strands

ElementResiduesLengthSheet
α-helix40-489
α-helix52-7120
α-helix83-10523
α-helix112-1143
α-helix116-13823
α-helix162-1676
α-helix168-1703
α-helix173-1775
α-helix182-19312
α-helix197-21317
α-helix214-2185
α-helix219-2257
α-helix236-2372
α-helix278-28912
α-helix294-30310
α-helix310-34334
α-helix358-37114
α-helix426-4316
α-helix438-45922
α-helix474-49623
α-helix498-5025
α-helix504-51613
α-helix525-53410
α-helix535-5406
α-helix545-58036
α-helix600-61213
α-helix616-62611
α-helix635-6384
α-helix639-66830
α-helix799-8068
α-helix809-82820
α-helix832-8365
α-helix840-86122
α-helix867-8715
α-helix873-88412
α-helix896-9016
α-helix905-9106
α-helix913-92715
α-helix929-95022
β-strand974-97521
β-strand983-98421
α-helix1000-101112
α-helix1016-10249
α-helix1039-10413
α-helix1042-107534
α-helix1106-111611
α-helix1119-113618
α-helix1146-116924
α-helix1182-120120
α-helix1231-124010
α-helix1241-12433
α-helix1244-12496
α-helix1254-126411
α-helix1268-128619
α-helix1309-132113
α-helix1325-13328
α-helix1358-138225
α-helix1384-139411
α-helix1401-141010
α-helix1417-14226
α-helix1424-143310
α-helix1441-145313
α-helix1460-147415
α-helix1480-14834
α-helix1488-149710
α-helix1506-151914
Chain B: 16 helices, 14 β-strands
ElementResiduesLengthSheet
α-helix43-5614
α-helix59-602
β-strand62-6652
β-strand7013
α-helix74-763
β-strand8713
β-strand92-9762
β-strand103-10862
β-strand116-11942
α-helix1201
α-helix121-13414
β-strand220-22342
β-strand229-23244
α-helix240-25617
β-strand26115
β-strand26416
α-helix270-2723
α-helix286-2883
α-helix296-30914
α-helix310-3123
β-strand31515
β-strand31816
α-helix326-3316
β-strand337-34044
α-helix346-35510
α-helix364-37613
α-helix379-3824
β-strand385-38624
α-helix392-41019
α-helix413-4153
Chain E: 4 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix7-2822
β-strand33-3537
α-helix97-12731
α-helix132-16534
β-strand177-17937
α-helix181-20323
Chain F: 28 helices, 37 β-strands
ElementResiduesLengthSheet
β-strand44-4528
β-strand49-5028
α-helix53-553
α-helix56-6712
α-helix78-11134
β-strand12919
β-strand14219
β-strand166-167210
α-helix179-20022
β-strand207-211510
β-strand216-219410
α-helix222-2243
α-helix244-2485
β-strand255-260611
β-strand264112
β-strand266112
α-helix269-28416
β-strand291-293311
β-strand294-296313
β-strand300-302313
α-helix315-32511
α-helix336-34712
β-strand358-364711
α-helix372-3787
β-strand384-390711
β-strand391114
α-helix399-4079
β-strand415114
α-helix420-4289
α-helix430-4334
α-helix434-4374
β-strand447110
α-helix448-4514
β-strand453115
β-strand460115
β-strand461-466610
β-strand479-484610
α-helix485-4906
β-strand500-501216
α-helix563-5664
α-helix572-5809
β-strand594-596317
β-strand603-605317
β-strand609-613516
β-strand620-624516
α-helix640-65112
α-helix663-67614
α-helix682-69615
α-helix732-75019
α-helix753-76412
α-helix778-79821
β-strand806-807218
β-strand818-819218
β-strand827-832619
β-strand839-844619
α-helix859-8668
β-strand873120
β-strand882121
β-strand885120
β-strand890120
β-strand893121
α-helix903-9119
α-helix931-9377
β-strand951119
α-helix979-98810

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Voltage-dependent L-type calcium channel subunit alpha-1SAprotein1873Oryctolagus cuniculusP07293 (AlphaFold model)
Voltage-dependent L-type calcium channel subunit beta-2Bprotein356Rattus norvegicusQ8VGC3 (AlphaFold model)
Voltage-dependent calcium channel gamma-1 subunitEprotein222Oryctolagus cuniculusP19518 (AlphaFold model)
Voltage-dependent calcium channel subunit alpha-2/delta-1Fprotein1106Oryctolagus cuniculusP13806 (AlphaFold model)
Sequence of entity 1 (A), FASTA
>3JBR_1 Voltage-dependent L-type calcium channel subunit alpha-1S (chains A)
MEPSSPQDEGLRKKQPKKPLPEVLPRPPRALFCLTLQNPLRKACISIVEWKPFETIILLT
IFANCVALAVYLPMPEDDNNSLNLGLEKLEYFFLTVFSIEAAMKIIAYGFLFHQDAYLRS
GWNVLDFIIVFLGVFTAILEQVNVIQSNTAPMSSKGAGLDVKALRAFRVLRPLRLVSGVP
SLQVVLNSIFKAMLPLFHIALLVLFMVIIYAIIGLELFKGKMHKTCYYIGTDIVATVENE
KPSPCARTGSGRPCTINGSECRGGWPGPNHGITHFDNFGFSMLTVYQCITMEGWTDVLYW
VNDAIGNEWPWIYFVTLILLGSFFILNLVLGVLSGEFTKEREKAKSRGTFQKLREKQQLE
EDLRGYMSWITQGEVMDVEDLREGKLSLEEGGSDTESLYEIEGLNKIIQFIRHWRQWNRV
FRWKCHDLVKSRVFYWLVILIVALNTLSIASEHHNQPLWLTHLQDIANRVLLSLFTIEML
LKMYGLGLRQYFMSIFNRFDCFVVCSGILELLLVESGAMTPLGISVLRCIRLLRLFKITK
YWTSLSNLVASLLNSIRSIASLLLLLFLFIIIFALLGMQLFGGRYDFEDTEVRRSNFDNF
PQALISVFQVLTGEDWNSVMYNGIMAYGGPSYPGVLVCIYFIILFVCGNYILLNVFLAIA
VDNLAEAESLTSAQKAKAEERKRRKMSRGLPDKTEEEKSVMAKKLEQKPKGEGIPTTAKL
KVDEFESNVNEVKDPYPSADFPGDDEEDEPEIPVSPRPRPLAELQLKEKAVPIPEASSFF
IFSPTNKVRVLCHRIVNATWFTNFILLFILLSSAALAAEDPIRAESVRNQILGYFDIAFT
SVFTVEIVLKMTTYGAFLHKGSFCRNYFNILDLLVVAVSLISMGLESSTISVVKILRVLR
VLRPLRAINRAKGLKHVVQCVFVAIRTIGNIVLVTTLLQFMFACIGVQLFKGKFFSCNDL
SKMTEEECRGYYYVYKDGDPTQMELRPRQWIHNDFHFDNVLSAMMSLFTVSTFEGWPQLL
YRAIDSNEEDMGPVYNNRVEMAIFFIIYIILIAFFMMNIFVGFVIVTFQEQGETEYKNCE
LDKNQRQCVQYALKARPLRCYIPKNPYQYQVWYVVTSSYFEYLMFALIMLNTICLGMQHY
HQSEEMNHISDILNVAFTIIFTLEMILKLLAFKARGYFGDPWNVFDFLIVIGSIIDVILS
EIDTFLASSGGLYCLGGGCGNVDPDESARISSAFFRLFRVMRLIKLLSRAEGVRTLLWTF
IKSFQALPYVALLIVMLFFIYAVIGMQMFGKIALVDGTQINRNNNFQTFPQAVLLLFRCA
TGEAWQEILLACSYGKLCDPESDYAPGEEYTCGTNFAYYYFISFYMLCAFLIINLFVAVI
MDNFDYLTRDWSILGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXGKFYATFLIQEHFRKFMKRQEEYYGYRPKKDTVQIQAGLR
TIEEEAAPEIRRTISGDLTAEEELERAMVEAAMEERIFRRTGGLFGQVDTFLERTNSLPP
VMANQRPLQFAEIEMEELESPVFLEDFPQDARTNPLARANTNNANANVAYGNSNHSNNQM
FSSVHCEREFPGEAETPAAGRGALSHSHRALGPHSKPCAGKLNGQLVQPGMPINQAPPAP
CQQPSTDPPERGQRRTSLTGSLQDEAPQRRSSEGSTPRRPAPATALLIQEALVRGGLDTL
AADAGFVTATSQALADACQMEPEEVEVAATELLKARESVQGMASVPGSLSRRSSLGSLDQ
VQGSQETLIPPRP
Sequence of entity 2 (B), FASTA
>3JBR_2 Voltage-dependent L-type calcium channel subunit beta-2 (chains B)
GHMGSADSYTSRPSDSDVSLEEDREAVRREAERQAQAQLEKAKTKPVAFAVRTNVRYSAA
QEDDVPVPGMAISFEAKDFLHVKEKFNNDWWIGRLVKEGCEIGFIPSPVKLENMRLQHEQ
RAKQGKFYSSKSMSKEKRMPFFKKTEHTPPYDVVPSMRPVVLVGPSLKGYEVTDMMQKAL
FDFLKHRFEGRISITRVTADISLAKRSVLNNPSKHAIIERSNTRSSLAEVQSEIERIFEL
ARTLQLVVLDADTINHPAQLSKTSLAPIIVYVKISSPKVLQRLIKSRGKSQAKHLNVQMV
AADKLAQCPPQESFDVILDENQLEDACEHLADYLEAYWKATHPPSSNLPNPLLSRT
Sequence of entity 3 (E), FASTA
>3JBR_3 Voltage-dependent calcium channel gamma-1 subunit (chains E)
MSPTEAPKVRVTLFCILVGIVLAMTAVVSDHWAVLSPHMENHNTTCEAAHFGLWRICTKR
IALGEDRSCGPITLPGEKNCSYFRHFNPGESSEIFEFTTQKEYSISAAAISVFSLGFLIM
GTICALMAFRKKRDYLLRPASMFYVFAGLCLFVSLEVMRQSVKRMIDSEDTVWIEYYYSW
SFACACAAFVLLFLGGISLLLFSLPRMPQNPWESCMDAEPEH
Sequence of entity 4 (F), FASTA
>3JBR_4 Voltage-dependent calcium channel subunit alpha-2/delta-1 (chains F)
MAAGRPLAWTLTLWQAWLILIGPSSEEPFPSAVTIKSWVXXXXXXXXXXXXXXXXVHQLV
DIYEKYQDLYTVEPNNARQLVEIAARDIEKLLSNRSKALVRLALEAEKVQAAHQWREDFA
SNEVVYYNAKDDLDPEKNDSEPGSQRIKPVFIDDANFRRQVSYQHAAVHIPTDIYEGSTI
VLNELNWTSALDDVFKKNREEDPSLLWQVFGSATGLARYYPASPWVDNSRTPNKIDLYDV
RRRPWYIQGAASPKDMLILVDVSGSVSGLTLKLIRTSVSEMLETLSDDDFVNVASFNSNA
QDVSCFQHLVQANVRNKKVLKDAVNNITAKGITDYKKGFSFAFEQLLNYNVSRANCNKII
MLFTDGGEERAQEIFAKYNKDKKVRVFTFSVGQHNYDRGPIQWMACENKGYYYEIPSIGA
IRINTQEYLDVLGRPMVLAGDKAKQVQWTNVYLDALELGLVITGTLPVFNITGQFENKTN
LKNQLILGVMGVDVSLEDIKRLTPRFTLCPNGYYFAIDPNGYVLLHPNLQPKPIGVGIPT
INLRKRRPNVQNPKSQEPVTLDFLDAELENDIKVEIRNKMIDGESGEKTFRTLVKSQDER
YIDKGNRTYTWTPVNGTDYSSLALVLPTYSFYYIKAKIEETITQARYSETLKPDNFEESG
YXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRLLEA
ADMEDDDFTASMSKQSCITEQTQYFFDNDSKSFSGVLDCGNCSRIFHVEKLMNTNLIFIM
VESKGTCPCDTRLLIQAEQTSDGPDPCDMVKQPRYRKGPDVCFDNNVLEDYTDCGGVSGL
NPSLWSIIGIQFVLLWLVSGSRHCLL

Ligands and cofactors

IDNameFormulaCopies
BMAbeta-D-mannopyranoseC6 H12 O62
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O615
CACalcium ionCa1

Primary citation

Structure of the voltage-gated calcium channel Cav1.1 complex. Wu, J.P., Yan, Z., Li, Z.Q. et al. Science (2015) 350:aad2395-aad2395. DOI 10.1126/science.aad2395 · PubMed

Other PDB entries of the same protein (UniProt P07293 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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