9M1K: TBC-DE-Arl2-beta-tubulin complex with GTP

Cryo-EM structure of the TBC-DE-Arl2-beta-tubulin complex with GTP. Determined by electron microscopy at 2.45 Å resolution. Released 22 Oct 2025.

Method
Electron microscopy
Resolution
2.45 Å
Organisms
Homo sapiens, Sus scrofa
Chains
4
Atoms
14,281
Mol. weight
263.89 kDa
Ligands
MG, GTP
Released
22 Oct 2025

Explore 9M1K in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9M1K contains 102 α-helices and 37 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 b: 22 helices, 20 β-strands

ElementResiduesLengthSheet
β-strand2-986
α-helix11-2515
β-strand3017
β-strand3617
α-helix47-493
β-strand51-5338
β-strand59-6138
β-strand63-6646
α-helix70-778
α-helix87-893
β-strand90-9126
α-helix101-1022
α-helix103-1075
α-helix109-12618
β-strand129-13686
α-helix143-15816
β-strand163-16646
β-strand169-17029
α-helix181-1844
α-helix187-1948
β-strand198-20036
β-strand202-20329
α-helix204-21310
α-helix222-23615
α-helix238-2414
α-helix250-2578
β-strand265-26626
β-strand267-268210
β-strand269111
α-helix286-2938
α-helix296-2983
β-strand299111
β-strand313-319710
α-helix323-33311
β-strand349110
β-strand352-354310
α-helix357-3582
β-strand363-369710
α-helix372-3743
α-helix375-38915
α-helix395-3995
α-helix405-42622
Chain D: 72 helices, 4 β-strands
ElementResiduesLengthSheet
α-helix33-419
α-helix51-6515
α-helix71-744
α-helix78-869
α-helix96-11217
α-helix115-1184
α-helix130-1334
α-helix135-1384
α-helix149-16012
α-helix185-19612
α-helix203-21513
α-helix218-2214
α-helix226-23611
α-helix244-26219
α-helix270-28112
α-helix291-30818
α-helix358-36811
α-helix374-38815
α-helix393-40513
α-helix413-42917
α-helix434-4363
α-helix437-4459
β-strand452-45323
β-strand458-45923
α-helix461-47717
α-helix480-4834
α-helix484-4863
α-helix488-49710
α-helix504-52017
α-helix527-5337
α-helix542-5454
α-helix548-5547
α-helix557-5593
α-helix561-5699
α-helix571-5733
α-helix577-59115
α-helix597-6004
α-helix603-6086
α-helix609-6113
α-helix615-63824
α-helix643-6453
α-helix649-6557
α-helix658-6647
α-helix670-68920
α-helix698-71215
α-helix722-73918
α-helix750-76213
α-helix763-7653
α-helix769-78012
α-helix791-80111
α-helix812-82918
β-strand83114
β-strand84014
α-helix845-85612
α-helix868-88619
α-helix891-8933
α-helix896-91015
α-helix915-92915
α-helix935-9362
α-helix942-9487
α-helix962-9643
α-helix966-9694
α-helix970-9745
α-helix977-9793
α-helix980-99011
α-helix995-101016
α-helix1016-103116
α-helix1037-105317
α-helix1058-10603
α-helix1066-107914
α-helix1085-109713
α-helix1098-11003
α-helix1104-111613
α-helix1122-113817
α-helix1145-115612
α-helix1164-117815
Chain E: 1 helix, 7 β-strands
ElementResiduesLengthSheet
β-strand446-45161
β-strand461-46551
β-strand47012
α-helix471-48212
β-strand490-49451
β-strand503-50421
β-strand51112
β-strand522-52651
Chain G: 7 helices, 6 β-strands
ElementResiduesLengthSheet
α-helix3-1513
β-strand16-2275
α-helix29-379
β-strand50-5785
β-strand60-6785
α-helix71-744
α-helix77-804
β-strand86-9275
α-helix99-11113
β-strand119-12575
α-helix135-1417
β-strand15115
α-helix165-17915

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Tubulin-specific chaperone EEprotein527Homo sapiensQ15813 (AlphaFold model)
Tubulin-specific chaperone DDprotein1192Homo sapiensQ9BTW9 (AlphaFold model)
ADP-ribosylation factor-like protein 2Gprotein184Homo sapiensP36404 (AlphaFold model)
Tubulin beta chainbprotein444Sus scrofaQ767L7 (AlphaFold model)
Sequence of entity 1 (E), FASTA
>9M1K_1 Tubulin-specific chaperone E (chains E)
MSDTLTADVIGRRVEVNGEHATVRFAGVVPPVAGPWLGVEWDNPERGKHDGSHEGTVYFK
CRHPTGGSFIRPNKVNFGTDFLTAIKNRYVLEDGPEEDRKEQIVTIGNKPVETIGFDSIM
KQQSQLSKLQEVSLRNCAVSCAGEKGGVAEACPNIRKVDLSKNLLSSWDEVIHIADQLRH
LEVLNVSENKLKFPSGSVLTGTLSVLKVLVLNQTGITWAEVLRCVAGCPGLEELYLESNN
IFISERPTDVLQTVKLLDLSSNQLIDENQLYLIAHLPRLEQLILSDTGISSLHFPDAGIG
CKTSMFPSLKYLVVNDNQISQWSFFNELEKLPSLRALSCLRNPLTKEDKEAETARLLIIA
SIGQLKTLNKCEILPEERRRAELDYRKAFGNEWKQAGGHKDPEKNRLSEEFLTAHPRYQF
LCLKYGAPEDWELKTQQPLMLKNQLLTLKIKYPHQLDQKVLEKQLPGSMTIQKVKGLLSR
LLKVPVSDLLLSYESPKKPGREIELENDLKSLQFYSVENGDCLLVRW
Sequence of entity 2 (D), FASTA
>9M1K_2 Tubulin-specific chaperone D (chains D)
MALSDEPAAGGPEEEAEDETLAFGAALEAFGESAETRALLGRLREVHGGGAEREVALERF
RVIMDKYQEQPHLLDPHLEWMMNLLLDIVQDQTSPASLVHLAFKFLYIITKVRGYKTFLR
LFPHEVADVEPVLDLVTIQNPKDHEAWETRYMLLLWLSVTCLIPFDFSRLDGNLLTQPGQ
ARMSIMDRILQIAESYLIVSDKARDAAAVLVSRFITRPDVKQSKMAEFLDWSLCNLARSS
FQTMQGVITMDGTLQALAQIFKHGKREDCLPYAATVLRCLDGCRLPESNQTLLRKLGVKL
VQRLGLTFLKPKVAAWRYQRGCRSLAANLQLLTQGQSEQKPLILTEDDDEDDDVPEGVER
VIEQLLVGLKDKDTVVRWSAAKGIGRMAGRLPRALADDVVGSVLDCFSFQETDKAWHGGC
LALAELGRRGLLLPSRLVDVVAVILKALTYDEKRGACSVGTNVRDAACYVCWAFARAYEP
QELKPFVTAISSALVIAAVFDRDINCRRAASAAFQENVGRQGTFPHGIDILTTADYFAVG
NRSNCFLVISVFIAGFPEYTQPMIDHLVTMKISHWDGVIRELAARALHNLAQQAPEFSAT
QVFPRLLSMTLSPDLHMRHGSILACAEVAYALYKLAAQENRPVTDHLDEQAVQGLKQIHQ
QLYDRQLYRGLGGQLMRQAVCVLIEKLSLSKMPFRGDTVIDGWQWLINDTLRHLHLISSH
SRQQMKDAAVSALAALCSEYYMKEPGEADPAIQEELITQYLAELRNPEEMTRCGFSLALG
ALPGFLLKGRLQQVLTGLRAVTHTSPEDVSFAESRRDGLKAIARICQTVGVKAGAPDEAV
CGENVSQIYCALLGCMDDYTTDSRGDVGTWVRKAAMTSLMDLTLLLARSQPELIEAHTCE
RIMCCVAQQASEKIDRFRAHAASVFLTLLHFDSPPIPHVPHRGELEKLFPRSDVASVNWS
APSQAFPRITQLLGLPTYRYHVLLGLVVSLGGLTESTIRHSTQSLFEYMKGIQSDPQALG
SFSGTLLQIFEDNLLNERVSVPLLKTLDHVLTHGCFDIFTTEEDHPFAVKLLALCKKEIK
NSKDIQKLLSGIAVFCEMVQFPGDVRRQALLQLCLLLCHRFPLIRKTTASQVYETLLTYS
DVVGADVLDEVVTVLSDTAWDAELAVVREQRNRLCDLLGVPRPQLVPQPGAC
Sequence of entity 3 (G), FASTA
>9M1K_3 ADP-ribosylation factor-like protein 2 (chains G)
MGLLTILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDIDTISPTLGFNIKTLEHRGF
KLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL
LIFANKQDLPGALSSNAIREVLELDSIRSHHWCIQGCSAVTGENLLPGIDWLLDDISSRI
FTAD
Sequence of entity 4 (b), FASTA
>9M1K_4 Tubulin beta chain (chains b)
MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYYNEATGGKYV
PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV
RKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTVV
EPYNATLSVHQLVENTDETYCIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCL
RFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQVFDAKNMM
AACDPRHGRYLTVAAVFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNVKTAVCDIPPRG
LKMAVTFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVS
EYQQYQDATAEEEEDFGEEAEEEA

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg2
GTPGuanosine-5'-triphosphateC10 H16 N5 O14 P32

Primary citation

Structural dissection of alpha beta-tubulin heterodimer assembly and disassembly by human tubulin-specific chaperones. Seong, Y., Kim, H., Byun, K. et al. Science (2025) 390:eady2708-eady2708. DOI 10.1126/science.ady2708 · PubMed

Other PDB entries of the same protein (UniProt Q15813 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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