9DGU: Alpha-centractin

structure of dynactin, dynein tail with two BICDR from dynein-dynactin-BICDR on microtubules. Determined by electron microscopy at 7.1 Å resolution. Released 10 Sept 2025.

Method: Electron microscopy
Resolution: 7.1 Å
Organisms: Sus scrofa, Mus musculus
Chains: 37
Atoms: 61,911
Mol. weight: 3871.87 kDa
Ligands: ADP, ATP, ZN
Released: 10 Sept 2025

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

Secondary structure: helices and β-sheets

9DGU contains 518 α-helices and 493 β-strands across 37 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: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	106-310	205

Chain A: 22 helices, 22 β-strands

Element	Residues	Length	Sheet
α-helix	10-11	2
β-strand	12-16	5	1
β-strand	20-25	6	1
β-strand	33-36	4	1
β-strand	39-42	4	2
β-strand	45-46	2	3
β-strand	57	1	2
α-helix	59-64	6
β-strand	69-72	4	2
β-strand	75-76	2	4
β-strand	79-80	2	4
α-helix	83-94	12
β-strand	108-112	5	1
α-helix	113	1
α-helix	118-126	9
α-helix	127-131	5
β-strand	136-141	6	1
α-helix	142-150	9
β-strand	155-160	6	5
β-strand	165-171	7	5
β-strand	174-175	2	5
α-helix	177-179	3
β-strand	181-183	3	5
α-helix	187-200	14
α-helix	208-220	13
β-strand	223	1	6
α-helix	228-232	5
β-strand	242	1	7
β-strand	248	1	7
α-helix	254-260	7
α-helix	265-267	3
α-helix	275-285	11
α-helix	288-296	9
β-strand	298-301	4	5
α-helix	303-306	4
β-strand	308	1	6
α-helix	310-321	12
α-helix	323	1
β-strand	330-331	2	5
α-helix	336-349	14
α-helix	352-356	5
β-strand	358-359	2	1
α-helix	360-366	7
α-helix	368-374	7

Chain b: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	107-293	187
α-helix	296-309	14

Chain B: 20 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	12-15	4	8
β-strand	20-25	6	8
β-strand	33-36	4	8
β-strand	39-42	4	9
β-strand	45-46	2	10
β-strand	57	1	9
α-helix	59-64	6
β-strand	69-72	4	9
β-strand	76	1	11
β-strand	79	1	11
α-helix	83-93	11
β-strand	108-111	4	8
α-helix	118-130	13
β-strand	136-138	3	8
α-helix	143-150	8
β-strand	155-160	6	12
β-strand	165-171	7	12
β-strand	174-175	2	12
α-helix	177-179	3
β-strand	181-183	3	12
α-helix	187-201	15
α-helix	208-220	13
β-strand	223	1	13
α-helix	228-233	6
α-helix	235-236	2
β-strand	240-242	3	14
β-strand	248-250	3	14
α-helix	254-257	4
α-helix	259-262	4
α-helix	265-267	3
α-helix	275-285	11
α-helix	288-295	8
β-strand	298-301	4	12
α-helix	303-306	4
β-strand	308	1	13
α-helix	310-321	12
β-strand	328-331	4	12
α-helix	339-349	11
α-helix	353-356	4
β-strand	358-359	2	8
α-helix	360-366	7
α-helix	368-375	8

Chain c: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	101-336	236

Chain C: 23 helices, 23 β-strands

Element	Residues	Length	Sheet
α-helix	6-8	3
α-helix	10-11	2
β-strand	12-16	5	19
β-strand	20-25	6	19
β-strand	33-36	4	19
β-strand	39-42	4	20
β-strand	45-46	2	21
β-strand	57	1	20
α-helix	60-64	5
β-strand	69-72	4	20
β-strand	75-76	2	22
β-strand	79-80	2	22
α-helix	83-93	11
α-helix	103-105	3
β-strand	108-111	4	19
α-helix	118-126	9
α-helix	127-131	5
β-strand	136-137	2	23
β-strand	139-140	2	19
α-helix	142-150	9
β-strand	155-160	6	3
β-strand	165-171	7	3
β-strand	174-175	2	3
β-strand	181-183	3	3
α-helix	187-201	15
α-helix	208-220	13
β-strand	223	1	24
α-helix	228-233	6
α-helix	236-239	4
β-strand	240-242	3	25
β-strand	248-250	3	25
α-helix	254-257	4
α-helix	259-261	3
α-helix	265-267	3
α-helix	275-285	11
α-helix	290-296	7
β-strand	298-301	4	3
α-helix	303-306	4
β-strand	308	1	24
α-helix	310-321	12
α-helix	323	1
β-strand	330-331	2	3
α-helix	339-349	11
α-helix	352-356	5
β-strand	358-359	2	23
α-helix	360-372	13

Chain d: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	101-334	234
α-helix	347-367	21

Chain D: 20 helices, 24 β-strands

Element	Residues	Length	Sheet
α-helix	10-11	2
β-strand	12-15	4	30
β-strand	20-25	6	30
β-strand	33-36	4	30
β-strand	39-42	4	31
β-strand	45-46	2	32
β-strand	57	1	31
α-helix	60-64	5
β-strand	69-72	4	31
β-strand	76	1	33
β-strand	79	1	33
α-helix	83-93	11
β-strand	108-109	2	30
β-strand	110-112	3	34
α-helix	118-126	9
α-helix	127-131	5
β-strand	136-137	2	35
β-strand	139-141	3	34
α-helix	142-150	9
β-strand	155-160	6	10
β-strand	165-171	7	10
β-strand	174-175	2	10
α-helix	177-179	3
β-strand	181-183	3	10
α-helix	187-201	15
α-helix	208-220	13
β-strand	223	1	36
α-helix	228-234	7
β-strand	240-242	3	37
β-strand	248-250	3	37
α-helix	254-263	10
α-helix	265-267	3
α-helix	275-285	11
α-helix	291-296	6
β-strand	298-301	4	10
α-helix	303-306	4
β-strand	308	1	36
α-helix	310-321	12
α-helix	323	1
β-strand	329-331	3	10
α-helix	339-349	11
α-helix	351-356	6
β-strand	358-359	2	35
α-helix	360-375	16

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

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Alpha-centractin	A, B, C, D, E, F, G, I	protein	376	Sus scrofa	A0A8D1PMN0 (AlphaFold model)
Actin, cytoplasmic 1	H	protein	375	Sus scrofa	Q6QAQ1 (AlphaFold model)
Actin-related protein 10	J	protein	417	Sus scrofa	I3LHK5 (AlphaFold model)
F-actin-capping protein subunit alpha-1	K	protein	286	Sus scrofa	A0PFK5 (AlphaFold model)
F-actin-capping protein subunit beta	L	protein	272	Sus scrofa	A0PFK7
Dynactin subunit 2	M, N, P, Q	protein	405	Sus scrofa	A0A5G2QD80
Dynactin subunit 3	O, R	protein	186	Sus scrofa	F1SEC0
Dynactin subunit 6	U	protein	190	Sus scrofa	D0G6S1
Dynactin subunit 5	V	protein	182	Sus scrofa	A0A286ZK88
Dynactin subunit 1	W, Z	protein	1281	Sus scrofa	A0A287B8J2
Dynactin subunit 4	Y	protein	467	Sus scrofa	A0A4X1TB62
BICD family-like cargo adapter 1	a, b, c, d	protein	577	Mus musculus	A0JNT9

3 more molecules are not listed.

Sequence of entity 1 (A, B, C, D, E, F, G, I), FASTA

>9DGU_1 Alpha-centractin (chains A, B, C, D, E, F, G, I)
MESYDVIANQPVVIDNGSGVIKAGFAGDQIPKYCFPNYVGRPKHVRVMAGALEGDIFIGP
KAEEHRGLLSIRYPMEHGIVKDWNDMERIWQYVYSKDQLQTFSEEHPVLLTEAPLNPRKN
RERAAEVFFETFNVPALFISMQAVLSLYATGRTTGVVLDSGDGVTHAVPIYEGFAMPHSI
MRIDIAGRDVSRFLRLYLRKEGYDFHSSSEFEIVKAIKERACYLSINPQKDETLETEKAQ
YYLPDGSTIEIGPSRFRAPELLFRPDLIGEESEGIHEVLVFAIQKSDMDLRRTLFSNIVL
SGGSTLFKGFGDRLLSEVKKLAPKDVKIRISAPQERLYSTWIGGSILASLDTFKKMWVSK
KEYEEDGARSIHRKTF

Sequence of entity 2 (H), FASTA

>9DGU_2 Actin, cytoplasmic 1 (chains H)
MDDDIAALVVDNGSGMCKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQS
KRGILTLKYPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMT
QIMFETFNTPAMYVAIQAVLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDL
AGRDLTDYLMKILTERGYSFTTTAEREIVRDIKEKLCYVALDFEQEMATAASSSSLEKSY
ELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETTFNSIMKCDVDIRKDLYANTVLS
GGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWISKQ
EYDESGPSIVHRKCF

Sequence of entity 3 (J), FASTA

>9DGU_3 Actin-related protein 10 (chains J)
MPLYEGLGSGGEKTAVVIDLGEAFTKCGFAGETGPRCIIPSVIKKAGMPKPIKVVQYNIN
TEELYSYLKEFIHILYFRHLLVNPRDRRVVVIESVLCPSHFRETLTRVLFKYFEVPSVLL
APSHLMALLTLGINSAMVLDCGYRESLVLPIYEGIPVLNCWGALPLGGKALHKELETQLL
EQCTVDTGAAKEQSLPSVMGSIPEGVLEDIKVRTCFVSDLTRGLKIQAAKFNIDGNTERP
SPPPNVDYPLDGEKILHVLGSIRDSVVEILFEQDNEEKSVATLILDSLMQCPIDTRKQLA
ENLVIIGGTSMLPGFLHRLLAEIRYLVEKPKYKKTLGTKTFRIHTPPAKANCVAWLGGAI
FGALQDILGSRSVSKEYYNQTGRIPDWCSLNNPPLEMVFDVGKSQPPLMKRAFSTEK

Sequence of entity 4 (K), FASTA

>9DGU_4 F-actin-capping protein subunit alpha-1 (chains K)
MADFEDRVSDEEKVRIAAKFITHAPPGEFNEVFNDVRLLLNNDNLLREGAAHAFAQYNMD
QFTPVKIEGYEDQVLITEHGDLGNSRFLDPRNKISFKFDHLRKEASDPQPEEVDGSLKSW
RESCDSALRAYVKDHYSNGFCTVYAKNIDGQQTIIACIESHQFQPKNFWNGRWRSEWKFT
ITPPTAQVVGVLKIQVHYYEDGNVQLVSHKDVQDSVTVSNEAQTAKEFIKIIEHAENEYQ
TAISENYQTMSDTTFKALRRQLPVTRTKIDWNKILSYKIGKEMQNA

Sequence of entity 5 (L), FASTA

>9DGU_5 F-actin-capping protein subunit beta (chains L)
MSDQQLDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYL
LCDYNRDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANNAFDQYRDLYFEGGVSSVY
LWDLDHGFAGVILIKKAGDGSKKIKGCWDSIHVVEVQEKSSGRTAHYKLTSTVMLWLQTN
KSGSGTMNLGGSLTRQMEKDETVSDCSPHIANIGRLVEDMENKIRSTLNEIYFGKTKDIV
NGLRSVQTFADKSKQEALKNDLVEALKRKQQC

Sequence of entity 6 (M, N, P, Q), FASTA

>9DGU_6 Dynactin subunit 2 (chains M, N, P, Q)
MADPKYADLPGIARNEPDVYETSDLPEDDQAEFDAELEELTSTSVEHIIVNPNAAYDKFK
DKRVGTKGLDFSDRIGKTKRTGYESGEYEMLGEGLGVKETPQQKYQRLLHEVQELTTEVE
KIKMTVKESATEEKLTPVVLAKQLAALKQQLVASHLEKLLGPDAAINLTDPDGALAKRLL
LQLEATKNTKGAGSGGKTTSGSPPDSSLVTYELHSRPEQDKFSQAAKVAELEKRLTELEA
TVRCDQDAQNPLSAGLQGACLMETVELLQAKVSALDLAVLDQVEARLQSVLGKVNEIAKH
KASVEDADTQSKVHQLYETIQRWSPIASTLPELVQRLVTIKQLHEQAMQFGQLLTHLDTT
QQMIACSLKDNATLLTQVQTTMRENLSTVEGNFANIDERMKKLGK

Sequence of entity 7 (O, R), FASTA

>9DGU_7 Dynactin subunit 3 (chains O, R)
MAGVTDVQRLQARLEELERWVYGPGGSRGSRKVADGLVKVQVALGNIASKRERVKILYKK
IEDLIKYLDPEYMDRIAIPDASKLQFILAEEQFILSQVALLEQVEALVPMLDSAHIKAVP
EHAARLQRLAQIHIQQQDQCVEITEESKALLEEYNKTTMLLSKQFVQWDELLCQLEAAKQ
VKPAEE

Sequence of entity 8 (U), FASTA

>9DGU_8 Dynactin subunit 6 (chains U)
MAEKTQKSVKIAPGAVVCVESEIRGDVTIGPRTVIHPKARIIAEAGPIVIGEGNLIEEQA
LIINAHPDNITPDAEDSEPKPMIIGTNNVFEVGCYSQAMKMGDNNVIESKAYVGRNVILT
SGCIIGACCNLNTFEVIPENTVIYGADCLRRVQTERPQPQTLQLDFLMKILPNYHHLKKT
MKGSSTPVKN

Sequence of entity 9 (V), FASTA

>9DGU_9 Dynactin subunit 5 (chains V)
MELGELLYNKSEYIETASGNKVSRQSVLCGSQNIVLNGKTIVMNDCIIRGDLANVRVGRH
CVVKSRSVIRPPFKKFSKGVAFFPLHIGDHVFIEEDCVVNAAQIGSYVHVGKNCVIGRRC
VLKDCCKILDNTVLPPETVVPPFTVFSGCPGLFSGELPECTQELMIDVTKSYYQKFLPLT
QV

Sequence of entity 10 (W, Z), FASTA

>9DGU_10 Dynactin subunit 1 (chains W, Z)
MAQSKRHVYSRTPSGSRMSAEASARPLRVGSRVEVIGKGHRGTVAYVGATLFATGKWVGV
ILDEAKGKNDGTVQGRKYFTCDEGHGIFVRQSQIQVFEDGADTTSPETPDSSASKVLRRE
GTDSNAKTSKLRGPKPKKAPTARKTTTRRPKPTRPASTGVAGASSSLGPSGSASAGELSS
SEPSTPAQTPLAAPIIPTPALTSPGAAPPLPSPSKEEEGLRAQVRDLEEKLETLRLKRAE
DKAKLKELEKHKIQLEQVQEWKSKMQEQQADLQRRLKEARKEAKEALEAKERYMEEMADT
ADAIEMATLDKEMAEERAESLQQEVEALKERVDELTTDLEILKAEIEEKGSDGAASSYQL
KQLEEQNARLKDALVRMRDLSSSEKQEHVKLQKLMEKKNQELEVVRQQRERLQEELSQAE
STIDELKEQVDAALGAEEMVEMLTDRNLNLEEKVRELRETVGDLEAMNEMNDELQENARE
TELELREQLDMAGARVREAQKRVEAAQETVADYQQTIKKYRQLTAHLQDVNRELTNQQEA
SVERQQQPPPETFDFKIKFAETKAHAKAIEMELRQMEVAQANRHMSLLTAFMPDSFLRPG
GDHDCVLVLLLMPRLICKAELIRKQAQEKFDLSENCSERPGLRGAAGEQLSFAAGLVYSL
SLLQATLHRYEHALSQCSVDVYKKVGSLYPEMSAHERSLDFLIELLHKDQLDETVNVEPL
TKAIKYYQHLYSIHLAEQPEDSTMQLADHIKFTQSALDCMSVEVGRLRAFLQGGQEASDI
ALLLRDLETSCSDIRQFCKKIRRRMPGTDAPGIPAALAFGAQVSDTLLDCRKHLTWVVAV
LQEVAAAAAQLIAPLAENEGLPVAALEELAFKASEQIYGTPSSSPYECLRQSCNILISTM
NKLATAMQEGEYDAERPPSKPPPVELRAAALRAEITDAEGLGLKLEDRETVIKELKKSLK
IKGEELSEANVRLSLLEKKLDSAAKDADERIEKVQTRLEETQALLRKKEKEFEETMDALQ
ADIDQLEAEKAELKQRLNSQSKRTIEGIRGPPPSGIATLVSGIAGEEQQRGGAPGQAPGI
VPGPGLVKDSPLLLQQISAMRLHISQLQHENSVLKGAQMKASLAALPPLHVAKLSLPPHE
GPGSELAAGALYRKTNQLLETLNQLSTHTHVVDITRSSPAAKSPSAQLLEQVTQLKSLSD
TIEKLKDEVLKETVSQRPGATVPTDFATFPSSAFLRAKEEQQDDTVYMGKVTFSCAAGLG
QRHRLVLTQEQLHQLHDRLIS

Sequence of entity 11 (Y), FASTA

>9DGU_11 Dynactin subunit 4 (chains Y)
MASLLQSERVLYLVQGEKKVRAPLSQLYFCRYCSELRSLECVSHEVDSHYCPSCLENMPS
AEAKLKKNRCANCFDCPGCMHTLSTRATSISTQLPDDPAKTAVKKAYYLACGFCRWTSRD
VGMADKSVASGGWQEPDHPHTQRMNKLIEYYQQLAQKEKVERDRKKLARRRNYMPLAFSQ
HTIHVVDKYGLGTRLQRPRAGTTITALAGLSLKEGEDQKEIKIEPAQAVDEVEPLPEDYY
TRPVNLTEVTTLQQRLLQPDFQPICASQLYPRHKHLLIKRSLRCRQCEHNLSKPEFNPTS
IKFKIQLVAVNYIPEVRIMSIPNLRYMKESQVLLTLTNPVENLTHVTLLECEEGDPDDTN
STAKVSVPPTELVLAGKDAAAEYDELAEPQDFPDDPDVVAFRKANKVGVFIKVTPQREEG
DVTVCFKLKHDFKNLAAPIRPVEEADPGAEVSWLTQHVELSLGPLLP

Sequence of entity 12 (a, b, c, d), FASTA

>9DGU_12 BICD family-like cargo adapter 1 (chains a, b, c, d)
MSAFCLGLAGRASAPAEPDSACCMELPAGAGDAVRSPATAAALVSFPGGPGELELALEEE
LALLAAGERSSEPGEHPQAEPESPVEGHGPPLPPPPTQDPELLSVIRQKEKDLVLAARLG
KALLERNQDMSRQYEQMHKELTDKLEHLEQEKHELRRRFENREGEWEGRVSELETDVKQL
QDELERQQLHLREADREKTRAVQELSEQNQRLLDQLSRASEVERQLSMQVHALKEDFREK
NSSTNQHIIRLESLQAEIKMLSDRKRELEHRLSATLEENDLLQGTVEELQDRVLILERQG
HDKDLQLHQSQLELQEVRLSYRQLQGKVEELTEERSLQSSAATSTSLLSEIEQSMEAEEL
EQEREQLRLQLWEAYCQVRYLCSHLRGNDSADSAVSTDSSMDESSETSSAKDVPAGSLRT
ALNDLKRLIQSIVDGVEPTVTLLSVEMTALKEERDRLRVTSEDKEPKEQLQKAIRDRDEA
IAKKNAVELELAKCKMDMMSLNSQLLDAIQQKLNLSQQLEAWQDDMHRVIDRQLMDTHLK
EQSRPAAAAFPRGHGVGRGQEPSTADGKRLFSFFRKI

Ligands and cofactors

ID	Name	Formula	Copies
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	9
ATP	Adenosine-5'-triphosphate	C10 H16 N5 O13 P3	1
ZN	Zinc ion	Zn	3

Primary citation

Roles of microtubules and LIS1 in dynein transport machinery assembly. Rao, Q., Yang, J., Chai, P. et al. Nature (2026) 652:1384-1392. DOI 10.1038/s41586-026-10153-y · PubMed

Other PDB entries of the same protein (UniProt A0A8D1PMN0 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7Z8M 3.37 Å, The pointed end complex of dynactin bound to BICDR1
9DGS 3.9 Å, Dynactin and dynein tail region of dynein-dynactin complex on microtubules
9YNG 4.07 Å, Dynactin and dynein-1 tail region of dynein-dynactin complex on microtubule in the…
9DGT 7.2 Å, structure of dynactin, dynein tail with one BICDR from dynein-dynactin-BICDR on…
9DGV 8.8 Å, structure of dynactin, dynein tail with TRAK2 from dynein-dynactin-TRAK2 on microtubules
9DGR 15.0 Å, Composite structure of dynein-dynactin on microtubules

Browse structure collections

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