9BM2: Cytoplasmic dynein 1 heavy chain 1

State-4 of motor domain from full-length human dynein-1 in 5 mM ATP. Determined by electron microscopy at 2.82 Å resolution. Released 23 Apr 2025.

Method
Electron microscopy
Resolution
2.82 Å
Organism
Homo sapiens
Chains
1
Atoms
23,046
Mol. weight
534.92 kDa
Ligands
MG, ATP, ADP
Released
23 Apr 2025

Explore 9BM2 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9BM2 contains 156 α-helices and 66 β-strands across 1 chain. 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: 156 helices, 66 β-strands

ElementResiduesLengthSheet
α-helix1537-155317
α-helix1562-158221
α-helix1588-15925
α-helix1597-162428
α-helix1627-16315
α-helix1634-16429
α-helix1649-16524
β-strand1663-166641
β-strand1672-167761
β-strand1683-169191
α-helix1698-172730
α-helix1735-174410
α-helix1747-176923
α-helix1778-179720
α-helix1802-182726
α-helix1836-18394
β-strand1842-184652
α-helix1854-18563
β-strand1857-186152
β-strand1864-186742
α-helix1878-18803
α-helix1883-189715
β-strand1901-190553
α-helix1912-192211
β-strand1927-193153
α-helix1938-195114
β-strand1954-195853
α-helix1960-19623
α-helix1965-198622
α-helix1995-19973
β-strand1998-200034
β-strand2005-200734
β-strand2013-201863
α-helix2027-20293
α-helix2030-20334
β-strand2036-204053
α-helix2046-205611
α-helix2062-207918
α-helix2090-211728
α-helix2124-21296
α-helix2133-214412
α-helix2146-21483
α-helix2151-21533
α-helix2154-216411
α-helix2176-218813
α-helix2201-221616
β-strand2219-222355
α-helix2230-224516
α-helix2247-22482
β-strand2249-225465
α-helix2256-22583
α-helix2261-22655
β-strand2266-226836
β-strand2275-227736
α-helix2279-228911
α-helix2294-22963
β-strand2298-230475
α-helix2309-23124
α-helix2313-23153
β-strand2324-232637
β-strand2332-233437
α-helix2335-23362
β-strand2339-234575
α-helix2353-23575
β-strand2360-236345
α-helix2371-238414
α-helix2411-242313
α-helix2424-24263
α-helix2432-24409
α-helix2451-247525
α-helix2483-250220
α-helix2508-252114
α-helix2534-25363
β-strand2537-253938
β-strand2545-254738
α-helix2548-25514
α-helix2559-25613
α-helix2572-258615
β-strand2591-259449
α-helix2601-261010
β-strand2615-262069
α-helix2628-263811
β-strand2639-2644610
β-strand2647-2652610
β-strand2658-266369
α-helix2670-26712
α-helix2678-268811
β-strand2691-2694410
β-strand2699-2703510
β-strand2706-271279
α-helix2722-27243
α-helix2725-27284
β-strand2733-273539
α-helix2737-27393
α-helix2741-275616
α-helix2760-27656
α-helix2766-278318
α-helix2796-281015
α-helix2818-282912
α-helix2830-28345
α-helix2840-285718
α-helix2863-28664
β-strand2873111
β-strand2883111
α-helix2886-290318
α-helix2913-292614
β-strand2932-2937612
α-helix2943-295311
α-helix29561
β-strand2957-2959312
α-helix2969-298416
β-strand2990-2995612
α-helix2996-29983
α-helix3002-301413
α-helix3024-304017
α-helix3047-306115
β-strand3063-3068612
α-helix3072-308110
α-helix3084-30874
β-strand3089-3095712
α-helix3097-30982
α-helix3099-310911
α-helix3110-31123
α-helix3139-316325
α-helix3169-31713
α-helix3173-324068
α-helix3450-349445
α-helix3496-351621
α-helix3522-353817
α-helix3549-35535
α-helix3556-35649
α-helix3571-358111
α-helix35861
β-strand3587-3590413
α-helix3595-36039
β-strand3610-3612313
α-helix3619-362911
β-strand3632-3635413
α-helix3638-36403
α-helix3643-36453
α-helix3646-36494
β-strand3653-3656414
β-strand3659-3664614
β-strand3667-3670414
β-strand3676-3681613
α-helix3690-36956
β-strand3697-3700413
α-helix3702-37043
α-helix3705-372016
α-helix3722-375534
α-helix3764-381754
α-helix3818-38203
α-helix3829-384012
α-helix3844-38463
α-helix3852-387221
α-helix3877-38793
α-helix3880-389314
α-helix3902-39109
α-helix3911-39133
α-helix3929-393810
α-helix3942-39443
α-helix3948-39536
α-helix3957-39615
α-helix3966-39683
α-helix3979-39813
α-helix3982-399615
α-helix3998-40003
α-helix4001-401313
α-helix4024-40252
α-helix4027-40326
β-strand4041-4045515
α-helix4052-406110
β-strand4066-4070515
α-helix4074-409017
β-strand4093-4097515
α-helix4099-41013
α-helix4103-411412
β-strand4123-4129715
α-helix4136-41416
β-strand4143-4147515
α-helix4153-416311
α-helix4166-41694
α-helix4175-419319
α-helix4197-42004
α-helix4209-422618
α-helix4235-42373
α-helix4240-42467
α-helix4247-42515
α-helix4259-427214
α-helix4275-42784
β-strand4283116
β-strand4289117
β-strand4292117
α-helix42941
β-strand4295116
α-helix4296-42972
α-helix4302-43109
α-helix4318-43214
α-helix4327-434519
α-helix4375-439016
α-helix4396-44005
α-helix4402-44054
α-helix4408-443831
α-helix4443-44442
α-helix4446-445712
α-helix4459-44613
α-helix4475-449824
α-helix4503-45053
β-strand4509-4510218
α-helix4511-45133
α-helix4517-453216
α-helix4536-45383
β-strand4539-4546818
β-strand4557-4561518
β-strand4564-4571819
β-strand4574-45841119
β-strand4587-4594818
β-strand4604-4610719
β-strand4618-4626919
α-helix46271
α-helix4632-46376
β-strand4641-4643319

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Cytoplasmic dynein 1 heavy chain 1Aprotein4646Homo sapiensQ14204
Sequence of entity 1 (A), FASTA
>9BM2_1 Cytoplasmic dynein 1 heavy chain 1 (chains A)
MSEPGGGGGEDGSAGLEVSAVQNVADVSVLQKHLRKLVPLLLEDGGEAPAALEAALEEKS
ALEQMRKFLSDPQVHTVLVERSTLKEDVGDEGEEEKEFISYNINIDIHYGVKSNSLAFIK
RTPVIDADKPVSSQLRVLTLSEDSPYETLHSFISNAVAPFFKSYIRESGKADRDGDKMAP
SVEKKIAELEMGLLHLQQNIEIPEISLPIHPMITNVAKQCYERGEKPKVTDFGDKVEDPT
FLNQLQSGVNRWIREIQKVTKLDRDPASGTALQEISFWLNLERALYRIQEKRESPEVLLT
LDILKHGKRFHATVSFDTDTGLKQALETVNDYNPLMKDFPLNDLLSATELDKIRQALVAI
FTHLRKIRNTKYPIQRALRLVEAISRDLSSQLLKVLGTRKLMHVAYEEFEKVMVACFEVF
QTWDDEYEKLQVLLRDIVKRKREENLKMVWRINPAHRKLQARLDQMRKFRRQHEQLRAVI
VRVLRPQVTAVAQQNQGEVPEPQDMKVAEVLFDAADANAIEEVNLAYENVKEVDGLDVSK
EGTEAWEAAMKRYDERIDRVETRITARLRDQLGTAKNANEMFRIFSRFNALFVRPHIRGA
IREYQTQLIQRVKDDIESLHDKFKVQYPQSQACKMSHVRDLPPVSGSIIWAKQIDRQLTA
YMKRVEDVLGKGWENHVEGQKLKQDGDSFRMKLNTQEIFDDWARKVQQRNLGVSGRIFTI
ESTRVRGRTGNVLKLKVNFLPEIITLSKEVRNLKWLGFRVPLAIVNKAHQANQLYPFAIS
LIESVRTYERTCEKVEERNTISLLVAGLKKEVQALIAEGIALVWESYKLDPYVQRLAETV
FNFQEKVDDLLIIEEKIDLEVRSLETCMYDHKTFSEILNRVQKAVDDLNLHSYSNLPIWV
NKLDMEIERILGVRLQAGLRAWTQVLLGQAEDKAEVDMDTDAPQVSHKPGGEPKIKNVVH
ELRITNQVIYLNPPIEECRYKLYQEMFAWKMVVLSLPRIQSQRYQVGVHYELTEEEKFYR
NALTRMPDGPVALEESYSAVMGIVSEVEQYVKVWLQYQCLWDMQAENIYNRLGEDLNKWQ
ALLVQIRKARGTFDNAETKKEFGPVVIDYGKVQSKVNLKYDSWHKEVLSKFGQMLGSNMT
EFHSQISKSRQELEQHSVDTASTSDAVTFITYVQSLKRKIKQFEKQVELYRNGQRLLEKQ
RFQFPPSWLYIDNIEGEWGAFNDIMRRKDSAIQQQVANLQMKIVQEDRAVESRTTDLLTD
WEKTKPVTGNLRPEEALQALTIYEGKFGRLKDDREKCAKAKEALELTDTGLLSGSEERVQ
VALEELQDLKGVWSELSKVWEQIDQMKEQPWVSVQPRKLRQNLDALLNQLKSFPARLRQY
ASYEFVQRLLKGYMKINMLVIELKSEALKDRHWKQLMKRLHVNWVVSELTLGQIWDVDLQ
KNEAIVKDVLLVAQGEMALEEFLKQIREVWNTYELDLVNYQNKCRLIRGWDDLFNKVKEH
INSVSAMKLSPYYKVFEEDALSWEDKLNRIMALFDVWIDVQRRWVYLEGIFTGSADIKHL
LPVETQRFQSISTEFLALMKKVSKSPLVMDVLNIQGVQRSLERLADLLGKIQKALGEYLE
RERSSFPRFYFVGDEDLLEIIGNSKNVAKLQKHFKKMFAGVSSIILNEDNSVVLGISSRE
GEEVMFKTPVSITEHPKINEWLTLVEKEMRVTLAKLLAESVTEVEIFGKATSIDPNTYIT
WIDKYQAQLVVLSAQIAWSENVETALSSMGGGGDAAPLHSVLSNVEVTLNVLADSVLMEQ
PPLRRRKLEHLITELVHQRDVTRSLIKSKIDNAKSFEWLSQMRFYFDPKQTDVLQQLSIQ
MANAKFNYGFEYLGVQDKLVQTPLTDRCYLTMTQALEARLGGSPFGPAGTGKTESVKALG
HQLGRFVLVFNCDETFDFQAMGRIFVGLCQVGAWGCFDEFNRLEERMLSAVSQQVQCIQE
ALREHSNPNYDKTSAPITCELLNKQVKVSPDMAIFITMNPGYAGRSNLPDNLKKLFRSLA
MTKPDRQLIAQVMLYSQGFRTAEVLANKIVPFFKLCDEQLSSQSHYDFGLRALKSVLVSA
GNVKRERIQKIKREKEERGEAVDEGEIAENLPEQEILIQSVCETMVPKLVAEDIPLLFSL
LSDVFPGVQYHRGEMTALREELKKVCQEMYLTYGDGEEVGGMWVEKVLQLYQITQINHGL
MMVGPSGSGKSMAWRVLLKALERLEGVEGVAHIIDPKAISKDHLYGTLDPNTREWTDGLF
THVLRKIIDSVRGELQKRQWIVFDGDVDPEWVENLNSVLDDNKLLTLPNGERLSLPPNVR
IMFEVQDLKYATLATVSRCGMVWFSEDVLSTDMIFNNFLARLRSIPLDEGEDEAQRRRKG
KEDEGEEAASPMLQIQRDAATIMQPYFTSNGLVTKALEHAFQLEHIMDLTRLRCLGSLFS
MLHQACRNVAQYNANHPDFPMQIEQLERYIQRYLVYAILWSLSGDSRLKMRAELGEYIRR
ITTVPLPTAPNIPIIDYEVSISGEWSPWQAKVPQIEVETHKVAAPDVVVPTLDTVRHEAL
LYTWLAEHKPLVLCGPPGSGKTMTLFSALRALPDMEVVGLNFSSATTPELLLKTFDHYCE
YRRTPNGVVLAPVQLGKWLVLFCDEINLPDMDKYGTQRVISFIRQMVEHGGFYRTSDQTW
VKLERIQFVGACNPPTDPGRKPLSHRFLRHVPVVYVDYPGPASLTQIYGTFNRAMLRLIP
SLRTYAEPLTAAMVEFYTMSQERFTQDTQPHYIYSPREMTRWVRGIFEALRPLETLPVEG
LIRIWAHEALRLFQDRLVEDEERRWTDENIDTVALKHFPNIDREKAMSRPILYSNWLSKD
YIPVDQEELRDYVKARLKVFYEEELDVPLVLFNEVLDHVLRIDRIFRQPQGHLLLIGVSG
AGKTTLSRFVAWMNGLSVYQIKVHRKYTGEDFDEDLRTVLRRSGCKNEKIAFIMDESNVL
DSGFLERMNTLLANGEVPGLFEGDEYATLMTQCKEGAQKEGLMLDSHEELYKWFTSQVIR
NLHVVFTMNPSSEGLKDRAATSPALFNRCVLNWFGDWSTEALYQVGKEFTSKMDLEKPNY
IVPDYMPVVYDKLPQPPSHREAIVNSCVFVHQTLHQANARLAKRGGRTMAITPRHYLDFI
NHYANLFHEKRSELEEQQMHLNVGLRKIKETVDQVEELRRDLRIKSQELEVKNAAANDKL
KKMVKDQQEAEKKKVMSQEIQEQLHKQQEVIADKQMSVKEDLDKVEPAVIEAQNAVKSIK
KQHLVEVRSMANPPAAVKLALESICLLLGESTTDWKQIRSIIMRENFIPTIVNFSAEEIS
DAIREKMKKNYMSNPSYNYEIVNRASLACGPMVKWAIAQLNYADMLKRVEPLRNELQKLE
DDAKDNQQKANEVEQMIRDLEASIARYKEEYAVLISEAQAIKADLAAVEAKVNRSTALLK
SLSAERERWEKTSETFKNQMSTIAGDCLLSAAFIAYAGYFDQQMRQNLFTTWSHHLQQAN
IQFRTDIARTEYLSNADERLRWQASSLPADDLCTENAIMLKRFNRYPLIIDPSGQATEFI
MNEYKDRKITRTSFLDDAFRKNLESALRFGNPLLVQDVESYDPVLNPVLNREVRRTGGRV
LITLGDQDIDLSPSFVIFLSTRDPTVEFPPDLCSRVTFVNFTVTRSSLQSQCLNEVLKAE
RPDVDEKRSDLLKLQGEFQLRLRQLEKSLLQALNEVKGRILDDDTIITTLENLKREAAEV
TRKVEETDIVMQEVETVSQQYLPLSTACSSIYFTMESLKQIHFLYQYSLQFFLDIYHNVL
YENPNLKGVTDHTQRLSIITKDLFQVAFNRVARGMLHQDHITFAMLLARIKLKGTVGEPT
YDAEFQHFLRGNEIVLSAGSTPRIQGLTVEQAEAVVRLSCLPAFKDLIAKVQADEQFGIW
LDSSSPEQTVPYLWSEETPATPIGQAIHRLLLIQAFRPDRLLAMAHMFVSTNLGESFMSI
MEQPLDLTHIVGTEVKPNTPVLMCSVPGYDASGHVEDLAAEQNTQITSIAIGSAEGFNQA
DKAINTAVKSGRWVMLKNVHLAPGWLMQLEKKLHSLQPHACFRLFLTMEINPKVPVNLLR
AGRIFVFEPPPGVKANMLRTFSSIPVSRICKSPNERARLYFLLAWFHAIIQERLRYAPLG
WSKKYEFGESDLRSACDTVDTWLDDTAKGRQNISPDKIPWSALKTLMAQSIYGGRVDNEF
DQRLLNTFLERLFTTRSFDSEFKLACKVDGHKDIQMPDGIRREEFVQWVELLPDTQTPSW
LGLPNNAERVLLTTQGVDMISKMLKMQMLEDEDDLAYAETEKKTRTDSTSDGRPAWMRTL
HTTASNWLHLIPQTLSHLKRTVENIKDPLFRFFEREVKMGAKLLQDVRQDLADVVQVCEG
KKKQTNYLRTLINELVKGILPRSWSHYTVPAGMTVIQWVSDFSERIKQLQNISLAAASGG
AKELKNIHVCLGGLFVPEAYITATRQYVAQANSWSLEELCLEVNVTTSQGATLDACSFGV
TGLKLQGATCNNNKLSLSNAISTALPLTQLRWVKQTNTEKKASVVTLPVYLNFTRADLIF
TVDFEIATKEDPRSFYERGVAVLCTE

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg2
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P31
ADPAdenosine-5'-diphosphateC10 H15 N5 O10 P23

Primary citation

The mechanochemical cycle of reactive full-length human dynein 1. Chai, P., Yang, J., Geohring, I.C. et al. Nat Struct Mol Biol (2025) 32:1383-1395. DOI 10.1038/s41594-025-01543-3 · PubMed

Other PDB entries of the same protein (UniProt Q14204), best resolution first:

Browse structure collections

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