8IXF: Tubulin alpha-4A chain

GMPCPP-Alpha4A/Beta2A-microtubule decorated with kinesin non-seam region. Determined by electron microscopy at 4.4 Å resolution. Released 16 Aug 2023.

Method
Electron microscopy
Resolution
4.4 Å
Organisms
Mus musculus, Homo sapiens
Chains
27
Atoms
84,087
Mol. weight
1307.07 kDa
Ligands
GTP, G2P, ATP
Released
16 Aug 2023

Explore 8IXF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8IXF contains 522 α-helices and 522 β-strands across 27 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.

Chains a, S, T, U, V, W, X, Y and Z: 14 helices, 20 β-strands

ElementResiduesLengthSheet
β-strand815
α-helix91
β-strand10-1566
α-helix20-234
β-strand32-3437
β-strand38-4037
β-strand45-4737
β-strand50-5236
α-helix58-658
α-helix67-759
β-strand78-8366
α-helix91-955
β-strand9718
β-strand10518
α-helix107-12115
β-strand126-137126
β-strand142-14436
β-strand154-15749
β-strand163-16649
β-strand171-17226
α-helix176-18813
β-strand192-193210
β-strand201-202210
β-strand205-216126
β-strand222-231106
α-helix238-2414
α-helix246-27025
α-helix277-2793
α-helix281-2855
α-helix287-2915
β-strand294-30296
α-helix306-3083
α-helix309-32315
β-strand32615
Chains A, B, C, D, E, F, G, H and I: 23 helices, 18 β-strands
ElementResiduesLengthSheet
β-strand3-9723
α-helix10-2718
β-strand59124
β-strand69124
β-strand71-74423
α-helix79-857
α-helix111-1155
α-helix116-1183
α-helix121-13313
β-strand138-145823
α-helix151-1555
α-helix156-1649
β-strand171-177723
α-helix178-1803
α-helix189-20315
β-strand206-210523
α-helix212-22110
α-helix230-24415
α-helix246-2494
β-strand254125
α-helix260-2634
β-strand268126
β-strand271126
β-strand274125
β-strand277-279325
α-helix284-2896
α-helix294-3018
α-helix304-3063
β-strand307125
β-strand318-3271025
α-helix331-34313
β-strand349125
β-strand358125
β-strand361-362225
α-helix365-3662
α-helix375-3762
β-strand379-387925
α-helix388-3903
α-helix391-40616
α-helix412-4176
α-helix422-44120
Chains J, K, L, M, N, O, P, Q and R: 21 helices, 20 β-strands
ElementResiduesLengthSheet
β-strand3-9727
α-helix11-2818
β-strand30128
β-strand35129
β-strand36128
β-strand51-53330
α-helix55-573
β-strand58129
β-strand59-61330
β-strand63-67527
α-helix70-778
β-strand91-92227
α-helix101-1022
α-helix103-1075
α-helix110-12617
β-strand130-138927
α-helix143-1475
α-helix148-15811
β-strand163-170827
α-helix181-19212
β-strand198-203627
α-helix204-21310
α-helix222-23615
β-strand246131
α-helix250-2578
β-strand265-266227
β-strand267-271532
α-helix276-2783
α-helix286-2938
α-helix305-3073
β-strand310-318932
α-helix323-33513
α-helix338-3403
β-strand341132
β-strand349-352432
β-strand353131
β-strand364-371832
α-helix372-3743
α-helix375-38915
α-helix396-3994
α-helix405-42420

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Tubulin alpha-4A chainA, B, C, D, E, F, G, H, Iprotein454Mus musculusP68368 (AlphaFold model)
Tubulin beta-2A chainJ, K, L, M, N, O, P, Q, Rprotein457Mus musculusQ7TMM9 (AlphaFold model)
Kinesin-1 heavy chainS, T, U, V, W, X, Y, Z, aprotein372Homo sapiensP33176 (AlphaFold model)
Sequence of entity 1 (A, B, C, D, E, F, G, H, I), FASTA
>8IXF_1 Tubulin alpha-4A chain (chains A, B, C, D, E, F, G, H, I)
MRECISVHVGQAGVQMGNACWELYCLEHGIQPDGQMPSDKTIHHHHHHGGGDDSFTTFFC
ETGAGKHVPRAVFVDLEPTVIDEIRNGPYRQLFHPEQLITGKEDAANNYARGHYTIGKEI
IDPVLDRIRKLSDQCTGLQGFLVFHSFGGGTGSGFTSLLMERLSVDYGKKSKLEFSIYPA
PQVSTAVVEPYNSILTTHTTLEHSDCAFMVDNEAIYDICRRNLDIERPTYTNLNRLISQI
VSSITASLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPVISAEKAYHEQLSVAEITNA
CFEPANQMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIAAIKTKRSIQFVDWCPTGFKVG
INYQPPTVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDHKFDLMYAKRAFVHWYVGEGME
EGEFSEAREDMAALEKDYEEVGIDSYEDEDEGEE
Sequence of entity 2 (J, K, L, M, N, O, P, Q, R), FASTA
>8IXF_2 Tubulin beta-2A chain (chains J, K, L, M, N, O, P, Q, R)
MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGSYHGDSDLQLERINVYYNEAAGNKYV
PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV
RKESESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTFSVMPSPKVSDTVV
EPYNATLSVHQLVENTDETYSIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCL
RFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQMFDSKNMM
AACDPRHGRYLTVAAIFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNVKTAVCDIPPRG
LKMSATFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVS
EYQQYQDATADEQGEFEEEEGEDEAGGSGGDYKDDDK
Sequence of entity 3 (S, T, U, V, W, X, Y, Z, a), FASTA
>8IXF_3 Kinesin-1 heavy chain (chains S, T, U, V, W, X, Y, Z, a)
MGSSHHHHHHSSGLVPRGSHMASMADLAECNIKVMCRFRPLNESEVNRGDKYIAKFQGED
TVVIASKPYAFDRVFQSSTSQEQVYNDCAKKIVKDVLEGYNGTIFAYGQTSSGKTHTMEG
KLHDPEGMGIIPRIVQDIFNYIYSMDENLEFHIKVSYFEIYLDKIRDLLDVSKTNLSVHE
DKNRVPYVKGCTERFVCSPDEVMDTIDEGKSNRHVAVTNMNEHSSRSHSIFLINVKQENT
QTEQKLSGKLYLVDLAGSAKVSKTGAEGAVLDEAKNINKSLSALGNVISALAEGSTYVPY
RDSKMTRILQDSLGGNCRTTIVICCSPSSYNESETKSTLLFGQRAKTIKNTVCVNVELTA
EQWKKKYEKEKE

Ligands and cofactors

IDNameFormulaCopies
GTPGuanosine-5'-triphosphateC10 H16 N5 O14 P39
G2PPhosphomethylphosphonic acid guanylate esterC11 H18 N5 O13 P39
ATPAdenosine-5'-triphosphateC10 H16 N5 O13 P39

Primary citation

Cryo-EM of alpha-tubulin isotype-containing microtubules revealed a contracted structure of alpha 4A/ beta 2A microtubules. Diao, L., Zheng, W., Zhao, Q. et al. Acta Biochim Biophys Sin (Shanghai) (2023) 55:1551-1560. DOI 10.3724/abbs.2023130 · PubMed

Other PDB entries of the same protein (UniProt P68368 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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