7NVM: T-complex protein 1 subunit alpha

Human TRiC complex in closed state with nanobody Nb18, actin and PhLP2A bound. Determined by electron microscopy at 3.1 Å resolution. Released 2 Mar 2022.

Method
Electron microscopy
Resolution
3.1 Å
Organisms
Homo sapiens, Lama glama
Chains
20
Atoms
71,008
Mol. weight
1054.06 kDa
Ligands
AF3, MG, ADP
Released
2 Mar 2022

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

Secondary structure: helices and β-sheets

7NVM contains 394 α-helices and 441 β-strands across 20 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: 22 helices, 27 β-strands

ElementResiduesLengthSheet
β-strand9-13565
α-helix15-3319
β-strand42-46566
β-strand52-55466
α-helix58-647
β-strand67167
α-helix70-8516
α-helix90-10920
α-helix114-13522
β-strand138-139268
α-helix146-15611
α-helix165-17814
β-strand181-182269
α-helix184-1863
β-strand188-189269
β-strand196-199470
α-helix205-2073
β-strand209-212470
β-strand213-216471
β-strand228-229271
β-strand232-237671
β-strand241172
β-strand250-252373
β-strand254174
α-helix257-28125
β-strand285-288471
β-strand292172
α-helix294-30310
β-strand306-308371
α-helix313-32311
β-strand328171
α-helix342-3443
β-strand346-3551071
β-strand360-367871
β-strand373-377570
α-helix382-40423
β-strand407-410468
α-helix414-42613
α-helix427-4293
α-helix433-44513
α-helix447-4559
α-helix460-47617
α-helix478-4858
β-strand486-489475
β-strand494-497475
α-helix498-5014
β-strand504-506368
α-helix507-52519
β-strand527-533765
Chain A: 25 helices, 27 β-strands
ElementResiduesLengthSheet
β-strand9-1351
α-helix15-3218
α-helix33-353
β-strand42-4652
β-strand52-5542
α-helix58-647
β-strand6713
α-helix70-8516
α-helix90-10920
α-helix114-13522
β-strand138-13924
α-helix140-1423
α-helix146-15611
α-helix165-17915
β-strand181-18225
α-helix184-1863
β-strand188-18925
β-strand196-19946
α-helix205-2073
β-strand209-21246
β-strand213-21647
β-strand228-22927
β-strand232-23767
β-strand24118
β-strand250-25239
β-strand254110
α-helix257-28125
β-strand285-28847
β-strand29218
α-helix294-30310
β-strand306-30837
α-helix313-32311
β-strand32817
α-helix342-3443
β-strand346-355107
β-strand360-36787
β-strand373-37756
α-helix382-40423
β-strand407-41044
α-helix414-42613
α-helix427-4293
α-helix433-44513
α-helix447-4559
α-helix460-47617
α-helix478-4858
β-strand486-489411
β-strand494-497411
α-helix498-5014
β-strand504-50634
α-helix507-52519
β-strand527-53371
α-helix534-5352
Chain b: 21 helices, 21 β-strands
ElementResiduesLengthSheet
β-strand17-19376
α-helix21-3919
β-strand49-53577
β-strand61-64477
α-helix67-726
α-helix79-9416
α-helix99-11820
α-helix123-14422
β-strand146-147278
α-helix152-16817
α-helix171-1755
α-helix176-18813
α-helix196-1983
β-strand199-206879
α-helix209-2113
β-strand213-214279
β-strand218-220380
β-strand224180
β-strand232-240980
β-strand254-258573
α-helix261-28323
β-strand289-292480
α-helix298-30710
β-strand310-312380
α-helix317-32711
β-strand332180
α-helix338-3403
α-helix341-3433
β-strand344-3541180
β-strand357-365980
β-strand371-377779
α-helix380-40223
β-strand405-408478
α-helix412-42716
α-helix431-45222
α-helix458-47114
β-strand476-479481
β-strand484-487481
α-helix488-4914
β-strand494-496378
α-helix497-51519
β-strand517-522676
Chain B: 20 helices, 20 β-strands
ElementResiduesLengthSheet
β-strand17-19312
α-helix21-3919
β-strand49-52413
β-strand63-64213
α-helix67-726
α-helix79-9416
α-helix99-11820
α-helix125-14420
β-strand146-147214
α-helix152-16817
α-helix171-1755
α-helix176-18813
β-strand199-206815
α-helix209-2113
β-strand213-214215
β-strand218-220316
β-strand232-240916
β-strand254-25859
α-helix261-28323
β-strand289-292416
α-helix298-30710
β-strand310-312316
α-helix317-32711
β-strand332116
α-helix338-3403
α-helix342-3432
β-strand344-3541116
β-strand357-365916
β-strand371-377715
α-helix380-40223
β-strand405-408414
α-helix412-42615
α-helix431-45222
α-helix458-47114
β-strand476-479417
β-strand484-487417
α-helix488-4914
β-strand494-496314
α-helix497-51519
β-strand517-522612
Chain d: 23 helices, 23 β-strands
ElementResiduesLengthSheet
α-helix29-4719
β-strand58-62565
β-strand68-71465
α-helix74-807
α-helix86-10116
α-helix106-12621
α-helix132-15120
β-strand153-154282
α-helix160-17213
α-helix175-1773
α-helix180-19314
α-helix205-2073
β-strand208-212583
β-strand215184
α-helix218-2203
β-strand222183
β-strand227-229385
α-helix232-2332
β-strand241-249985
β-strand253186
β-strand262-266573
α-helix269-29123
β-strand297-301585
β-strand309186
α-helix311-3199
β-strand323-328685
α-helix333-3408
β-strand345185
α-helix348-3503
α-helix353-3553
β-strand357-3661085
β-strand372-377685
β-strand386-390583
β-strand392184
α-helix395-41622
β-strand420-423482
α-helix427-44115
α-helix446-45813
α-helix460-4667
α-helix473-48614
β-strand491-494487
β-strand499-502487
α-helix503-5053
β-strand509-511382
α-helix512-53019
β-strand532-537677
Chain D: 23 helices, 23 β-strands
ElementResiduesLengthSheet
α-helix29-4820
α-helix49-513
β-strand58-6251
β-strand68-7141
α-helix74-807
α-helix86-10116
α-helix106-12621
α-helix130-15122
β-strand153-154218
α-helix160-17213
α-helix180-19314
α-helix205-2073
β-strand208-212519
β-strand215120
α-helix218-2203
β-strand222-224319
β-strand227-229321
α-helix232-2332
β-strand240-2491021
β-strand253122
β-strand262-26659
α-helix269-29123
β-strand297-301521
β-strand309122
α-helix311-3199
β-strand323-328621
α-helix333-3408
β-strand344-345221
α-helix348-3503
α-helix353-3553
β-strand357-3661021
β-strand372-377621
β-strand386-390519
β-strand392120
α-helix395-41723
β-strand420-423418
α-helix427-44216
α-helix447-45812
α-helix460-46910
α-helix473-48614
β-strand491-494423
β-strand499-502423
α-helix503-5053
β-strand509-511318
α-helix512-53019
β-strand532-536513
Chain e: 23 helices, 21 β-strands
ElementResiduesLengthSheet
β-strand19188
β-strand28-29289
α-helix31-4818
α-helix49-513
α-helix56-572
β-strand58-62576
β-strand68-71476
α-helix74-807
α-helix86-10116
α-helix108-12518
α-helix130-15122
β-strand153-154290
α-helix163-17311
α-helix177-1815
α-helix182-19514
α-helix206-2083
β-strand209-216891
α-helix219-2213
β-strand223-225391
β-strand228-230392
β-strand242-2511092
β-strand263-268673
α-helix271-29424
β-strand299-302492
α-helix308-3169
β-strand321-322292
α-helix327-33711
β-strand342192
α-helix345-3473
β-strand354-3631092
β-strand370-375692
β-strand383-389791
α-helix392-41423
β-strand417-420490
α-helix424-43714
α-helix443-45513
α-helix457-4659
α-helix470-48314
β-strand489193
β-strand500193
α-helix501-5044
β-strand507-509390
α-helix510-52819
β-strand530-534589
Chain E: 24 helices, 24 β-strands
ElementResiduesLengthSheet
β-strand19124
β-strand28-29225
α-helix31-4818
α-helix49-513
α-helix56-572
β-strand58-62512
β-strand68-71412
α-helix74-807
α-helix86-10116
α-helix108-12518
α-helix130-15122
β-strand153-154226
α-helix163-17311
α-helix177-1815
α-helix182-19514
α-helix206-2083
β-strand209-216827
α-helix219-2213
β-strand223-225327
β-strand228-230328
β-strand234128
β-strand242-2511028
β-strand255129
β-strand263-26869
α-helix271-29424
β-strand299-302428
β-strand306129
α-helix308-3169
β-strand321-322228
α-helix327-33711
β-strand342128
α-helix345-3473
β-strand354-3631028
β-strand370-375628
β-strand383-389727
α-helix392-41423
β-strand417-420426
α-helix424-43714
α-helix442-4443
α-helix445-45511
α-helix457-4659
α-helix470-48314
β-strand489130
β-strand500130
α-helix501-5044
β-strand507-509326
α-helix510-52819
β-strand530-534525

10 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
T-complex protein 1 subunit alphaA, aprotein556Homo sapiensP17987 (AlphaFold model)
T-complex protein 1 subunit betaB, bprotein535Homo sapiensP78371 (AlphaFold model)
T-complex protein 1 subunit deltaD, dprotein539Homo sapiensP50991 (AlphaFold model)
T-complex protein 1 subunit epsilonE, eprotein541Homo sapiensP48643 (AlphaFold model)
T-complex protein 1 subunit gammaG, gprotein545Homo sapiensP49368
T-complex protein 1 subunit etaH, hprotein543Homo sapiensQ99832
Nanobody Nb18N, nprotein129Lama glama
T-complex protein 1 subunit thetaQ, qprotein548Homo sapiensP50990
T-complex protein 1 subunit zetaZ, zprotein531Homo sapiensP40227
Actin, cytoplasmic 2Kprotein375Homo sapiensP63261
Phosducin-like protein 3Pprotein239Homo sapiensQ9H2J4
Sequence of entity 1 (A, a), FASTA
>7NVM_1 T-complex protein 1 subunit alpha (chains A, a)
MEGPLSVFGDRSTGETIRSQNVMAAASIANIVKSSLGPVGLDKMLVDDIGDVTITNDGAT
ILKLLEVEHPAAKVLCELADLQDKEVGDGTTSVVIIAAELLKNADELVKQKIHPTSVISG
YRLACKEAVRYINENLIVNTDELGRDCLINAAKTSMSSKIIGINGDFFANMVVDAVLAIK
YTDIRGQPRYPVNSVNILKAHGRSQMESMLISGYALNCVVGSQGMPKRIVNAKIACLDFS
LQKTKMKLGVQVVITDPEKLDQIRQRESDITKERIQKILATGANVILTTGGIDDMCLKYF
VEAGAMAVRRVLKRDLKRIAKASGATILSTLANLEGEETFEAAMLGQAEEVVQERICDDE
LILIKNTKARTSASIILRGANDFMCDEMERSLHDALCVVKRVLESKSVVPGGGAVEAALS
IYLENYATSMGSREQLAIAEFARSLLVIPNTLAVNAAQDSTDLVAKLRAFHNEAQVNPER
KNLKWIGLDLSNGKPRDNKQAGVFEPTIVKVKSLKFATEAAITILRIDDLIKLHPESKDD
KHGSYEDAVHSGALND
Sequence of entity 2 (B, b), FASTA
>7NVM_2 T-complex protein 1 subunit beta (chains B, b)
MASLSLAPVNIFKAGADEERAETARLTSFIGAIAIGDLVKSTLGPKGMDKILLSSGRDAS
LMVTNDGATILKNIGVDNPAAKVLVDMSRVQDDEVGDGTTSVTVLAAELLREAESLIAKK
IHPQTIIAGWREATKAAREALLSSAVDHGSDEVKFRQDLMNIAGTTLSSKLLTHHKDHFT
KLAVEAVLRLKGSGNLEAIHIIKKLGGSLADSYLDEGFLLDKKIGVNQPKRIENAKILIA
NTGMDTDKIKIFGSRVRVDSTAKVAEIEHAEKEKMKEKVERILKHGINCFINRQLIYNYP
EQLFGAAGVMAIEHADFAGVERLALVTGGEIASTFDHPELVKLGSCKLIEEVMIGEDKLI
HFSGVALGEACTIVLRGATQQILDEAERSLHDALCVLAQTVKDSRTVYGGGCSEMLMAHA
VTQLANRTPGKEAVAMESYAKALRMLPTIIADNAGYDSADLVAQLRAAHSEGNTTAGLDM
REGTIGDMAILGITESFQVKRQVLLSAAEAAEVILRVDNIIKAAPRKRVPDHHPC
Sequence of entity 3 (D, d), FASTA
>7NVM_3 T-complex protein 1 subunit delta (chains D, d)
MPENVAPRSGATAGAAGGRGKGAYQDRDKPAQIRFSNISAAKAVADAIRTSLGPKGMDKM
IQDGKGDVTITNDGATILKQMQVLHPAARMLVELSKAQDIEAGDGTTSVVIIAGSLLDSC
TKLLQKGIHPTIISESFQKALEKGIEILTDMSRPVELSDRETLLNSATTSLNSKVVSQYS
SLLSPMSVNAVMKVIDPATATSVDLRDIKIVKKLGGTIDDCELVEGLVLTQKVSNSGITR
VEKAKIGLIQFCLSAPKTDMDNQIVVSDYAQMDRVLREERAYILNLVKQIKKTGCNVLLI
QKSILRDALSDLALHFLNKMKIMVIKDIEREDIEFICKTIGTKPVAHIDQFTADMLGSAE
LAEEVNLNGSGKLLKITGCASPGKTVTIVVRGSNKLVIEEAERSIHDALCVIRCLVKKRA
LIAGGGAPEIELALRLTEYSRTLSGMESYCVRAFADAMEVIPSTLAENAGLNPISTVTEL
RNRHAQGEKTAGINVRKGGISNILEELVVQPLLVSVSALTLATETVRSILKIDDVVNTR
Sequence of entity 4 (E, e), FASTA
>7NVM_4 T-complex protein 1 subunit epsilon (chains E, e)
MASMGTLAFDEYGRPFLIIKDQDRKSRLMGLEALKSHIMAAKAVANTMRTSLGPNGLDKM
MVDKDGDVTVTNDGATILSMMDVDHQIAKLMVELSKSQDDEIGDGTTGVVVLAGALLEEA
EQLLDRGIHPIRIADGYEQAARVAIEHLDKISDSVLVDIKDTEPLIQTAKTTLGSKVVNS
CHRQMAEIAVNAVLTVADMERRDVDFELIKVEGKVGGRLEDTKLIKGVIVDKDFSHPQMP
KKVEDAKIAILTCPFEPPKPKTKHKLDVTSVEDYKALQKYEKEKFEEMIQQIKETGANLA
ICQWGFDDEANHLLLQNNLPAVRWVGGPEIELIAIATGGRIVPRFSELTAEKLGFAGLVQ
EISFGTTKDKMLVIEQCKNSRAVTIFIRGGNKMIIEEAKRSLHDALCVIRNLIRDNRVVY
GGGAAEISCALAVSQEADKCPTLEQYAMRAFADALEVIPMALSENSGMNPIQTMTEVRAR
QVKEMNPALGIDCLHKGTNDMKQQHVIETLIGKKQQISLATQMVRMILKIDDIRKPGESE
E
Sequence of entity 5 (G, g), FASTA
>7NVM_5 T-complex protein 1 subunit gamma (chains G, g)
MMGHRPVLVLSQNTKRESGRKVQSGNINAAKTIADIIRTCLGPKSMMKMLLDPMGGIVMT
NDGNAILREIQVQHPAAKSMIEISRTQDEEVGDGTTSVIILAGEMLSVAEHFLEQQMHPT
VVISAYRKALDDMISTLKKISIPVDISDSDMMLNIINSSITTKAISRWSSLACNIALDAV
KMVQFEENGRKEIDIKKYARVEKIPGGIIEDSCVLRGVMINKDVTHPRMRRYIKNPRIVL
LDSSLEYKKGESQTDIEITREEDFTRILQMEEEYIQQLCEDIIQLKPDVVITEKGISDLA
QHYLMRANITAIRRVRKTDNNRIARACGARIVSRPEELREDDVGTGAGLLEIKKIGDEYF
TFITDCKDPKACTILLRGASKEILSEVERNLQDAMQVCRNVLLDPQLVPGGGASEMAVAH
ALTEKSKAMTGVEQWPYRAVAQALEVIPRTLIQNCGASTIRLLTSLRAKHTQENCETWGV
NGETGTLVDMKELGIWEPLAVKLQTYKTAVETAVLLLRIDDIVSGHKKKGDDQSRQGGAP
DAGQE
Sequence of entity 6 (H, h), FASTA
>7NVM_6 T-complex protein 1 subunit eta (chains H, h)
MMPTPVILLKEGTDSSQGIPQLVSNISACQVIAEAVRTTLGPRGMDKLIVDGRGKATISN
DGATILKLLDVVHPAAKTLVDIAKSQDAEVGDGTTSVTLLAAEFLKQVKPYVEEGLHPQI
IIRAFRTATQLAVNKIKEIAVTVKKADKVEQRKLLEKCAMTALSSKLISQQKAFFAKMVV
DAVMMLDDLLQLKMIGIKKVQGGALEDSQLVAGVAFKKTFSYAGFEMQPKKYHNPKIALL
NVELELKAEKDNAEIRVHTVEDYQAIVDAEWNILYDKLEKIHHSGAKVVLSKLPIGDVAT
QYFADRDMFCAGRVPEEDLKRTMMACGGSIQTSVNALSADVLGRCQVFEETQIGGERYNF
FTGCPKAKTCTFILRGGAEQFMEETERSLHDAIMIVRRAIKNDSVVAGGGAIEMELSKYL
RDYSRTIPGKQQLLIGAYAKALEIIPRQLCDNAGFDATNILNKLRARHAQGGTWYGVDIN
NEDIADNFEAFVWEPAMVRINALTAASEAACLIVSVDETIKNPRSTVDAPTAAGRGRGRG
RPH
Sequence of entity 7 (N, n), FASTA
>7NVM_7 Nanobody Nb18 (chains N, n)
QVQLVESGGGLVQAGGSLRLSCGASGTFFRINDMGWYRQASGKQRELVASITRGGTTDYA
DSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCKANRNWGREWDDYWGQGTQVTVSSH
HHHHHEPEA
Sequence of entity 8 (Q, q), FASTA
>7NVM_8 T-complex protein 1 subunit theta (chains Q, q)
MALHVPKAPGFAQMLKEGAKHFSGLEEAVYRNIQACKELAQTTRTAYGPNGMNKMVINHL
EKLFVTNDAATILRELEVQHPAAKMIVMASHMQEQEVGDGTNFVLVFAGALLELAEELLR
IGLSVSEVIEGYEIACRKAHEILPNLVCCSAKNLRDIDEVSSLLRTSIMSKQYGNEVFLA
KLIAQACVSIFPDSGHFNVDNIRVCKILGSGISSSSVLHGMVFKKETEGDVTSVKDAKIA
VYSCPFDGMITETKGTVLIKTAEELMNFSKGEENLMDAQVKAIADTGANVVVTGGKVADM
ALHYANKYNIMLVRLNSKWDLRRLCKTVGATALPRLTPPVLEEMGHCDSVYLSEVGDTQV
VVFKHEKEDGAISTIVLRGSTDNLMDDIERAVDDGVNTFKVLTRDKRLVPGGGATEIELA
KQITSYGETCPGLEQYAIKKFAEAFEAIPRALAENSGVKANEVISKLYAVHQEGNKNVGL
DIEAEVPAVKDMLEAGILDTYLGKYWAIKLATNAAVTVLRVDQIIMAKPAGGPKPPSGKK
DWDDDQND
Sequence of entity 9 (Z, z), FASTA
>7NVM_9 T-complex protein 1 subunit zeta (chains Z, z)
MAAVKTLNPKAEVARAQAALAVNISAARGLQDVLRTNLGPKGTMKMLVSGAGDIKLTKDG
NVLLHEMQIQHPTASLIAKVATAQDDITGDGTTSNVLIIGELLKQADLYISEGLHPRIIT
EGFEAAKEKALQFLEEVKVSREMDRETLIDVARTSLRTKVHAELADVLTEAVVDSILAIK
KQDEPIDLFMIEIMEMKHKSETDTSLIRGLVLDHGARHPDMKKRVEDAYILTCNVSLEYE
KTEVNSGFFYKSAEEREKLVKAERKFIEDRVKKIIELKRKVCGDSDKGFVVINQKGIDPF
SLDALSKEGIVALRRAKRRNMERLTLACGGVALNSFDDLSPDCLGHAGLVYEYTLGEEKF
TFIEKCNNPRSVTLLIKGPNKHTLTQIKDAVRDGLRAVKNAIDDGCVVPGAGAVEVAMAE
ALIKHKPSVKGRAQLGVQAFADALLIIPKVLAQNSGFDLQETLVKIQAEHSESGQLVGVD
LNTGEPMVAAEVGVWDNYCVKKQLLHSCTVIATNILLVDEIMRAGMSSLKG
Sequence of entity 10 (K), FASTA
>7NVM_10 Actin, cytoplasmic 2 (chains K)
MEEEIAALVIDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQS
KRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMT
QIMFETFNTPAMYVAIQAVLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDL
AGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSY
ELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETTFNSIMKCDVDIRKDLYANTVLS
GGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQ
EYDESGPSIVHRKCF
Sequence of entity 11 (P), FASTA
>7NVM_11 Phosducin-like protein 3 (chains P)
MQDPNADTEWNDILRKKGILPPKESLKELEEEAEEEQRILQQSVVKTYEDMTLEELEDHE
DEFNEEDERAIEMYRRRRLAEWKATKLKNKFGEVLEISGKDYVQEVTKAGEGLWVILHLY
KQGIPLCALINQHLSGLARKFPDVKFIKAISTTCIPNYPDRNLPTIFVYLEGDIKAQFIG
PLVFGGMNLTRDELEWKLSESGAIMTDLEENPKKPIEDVLLSSVRRSVLMKRDSDSEGD

Ligands and cofactors

IDNameFormulaCopies
AF3Aluminum fluorideAl F316
MGMagnesium ionMg16
ADPAdenosine-5'-diphosphateC10 H15 N5 O10 P216

Primary citation

Snapshots of actin and tubulin folding inside the TRiC chaperonin. Kelly, J.J., Tranter, D., Pardon, E. et al. Nat Struct Mol Biol (2022) 29:420-429. DOI 10.1038/s41594-022-00755-1 · PubMed

Other PDB entries of the same protein (UniProt P17987 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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