8YY5: Kinesin-14 with AlF3

Kinesin-14 with AlF3 bound to 14 PF Microtubule. Determined by electron microscopy at 3.99 Å resolution. Released 8 Oct 2025.

Method: Electron microscopy
Resolution: 3.99 Å
Organisms: Sus scrofa, Drosophila melanogaster
Chains: 4
Atoms: 12,315
Mol. weight: 194.8 kDa
Ligands: ALF, MG, ADP, GDP
Released: 8 Oct 2025

Explore 8YY5 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8YY5 contains 78 α-helices and 71 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 A: 25 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	5-8	4	1
α-helix	11-28	18
β-strand	53-55	3	2
β-strand	61-63	3	2
β-strand	65-67	3	1
β-strand	68	1	3
α-helix	72-80	9
α-helix	82-84	3
β-strand	93	1	3
α-helix	103-104	2
α-helix	105-109	5
α-helix	111-128	18
β-strand	135-140	6	1
α-helix	144	1
α-helix	145-149	5
α-helix	150-160	11
β-strand	167-172	6	1
α-helix	173-174	2
α-helix	183-192	10
β-strand	200-205	6	1
α-helix	206-215	10
α-helix	224-238	15
α-helix	240-243	4
α-helix	252-259	8
α-helix	268	1
β-strand	269-272	4	1
α-helix	278-283	6
α-helix	288-294	7
α-helix	311	1
β-strand	312-321	10	1
α-helix	325-337	13
β-strand	343	1	1
β-strand	353	1	1
α-helix	359-361	3
α-helix	369-370	2
β-strand	373-381	9	1
α-helix	383-400	18
α-helix	405-409	5
α-helix	415-436	22

Chain B: 22 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	3-9	7	4
α-helix	10-28	19
β-strand	30	1	5
β-strand	35	1	6
β-strand	36	1	5
α-helix	41-44	4
α-helix	47-49	3
β-strand	51-55	5	6
β-strand	58-61	4	6
β-strand	63-66	4	4
α-helix	70-78	9
α-helix	87-89	3
β-strand	90	1	4
α-helix	101-106	6
α-helix	108-126	19
β-strand	130-131	2	4
β-strand	132	1	7
β-strand	133-136	4	4
α-helix	142-158	17
β-strand	163	1	7
α-helix	170-172	3
α-helix	181-195	15
β-strand	199-200	2	8
α-helix	204-209	6
α-helix	210-214	5
α-helix	222-241	20
α-helix	250-256	7
β-strand	265-266	2	8
β-strand	267	1	9
β-strand	271	1	10
α-helix	286-291	6
α-helix	296-298	3
α-helix	305-307	3
β-strand	310-313	4	9
β-strand	318	1	11
β-strand	319	1	12
α-helix	323-336	14
β-strand	341	1	9
β-strand	354	1	11
α-helix	357-358	2
β-strand	363	1	12
β-strand	365	1	10
β-strand	369-371	3	9
α-helix	375-390	16
α-helix	396-400	5
α-helix	405-427	23

Chain C: 15 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	326-346	21
β-strand	350-355	6	13
α-helix	356-359	4
α-helix	360-365	6
β-strand	371-374	4	14
β-strand	377-379	3	14
α-helix	386-390	5
β-strand	395-397	3	14
β-strand	400-402	3	13
α-helix	408-412	5
α-helix	416-425	10
β-strand	427-434	8	13
α-helix	440-443	4
α-helix	453-469	17
β-strand	474-485	12	13
β-strand	488-491	4	13
β-strand	501-504	4	15
β-strand	512-515	4	15
β-strand	519-521	3	13
α-helix	525-541	17
α-helix	550-552	3
β-strand	554-565	12	13
β-strand	570-583	14	13
α-helix	593-615	23
α-helix	626-630	5
α-helix	632-636	5
β-strand	639-647	9	13
α-helix	654-668	15
α-helix	672-675	4
β-strand	678-681	4	13

Chain D: 16 helices, 18 β-strands

Element	Residues	Length	Sheet
α-helix	326-346	21
β-strand	350-355	6	16
α-helix	356-358	3
β-strand	367	1	17
β-strand	369-371	3	18
β-strand	377-381	5	18
α-helix	385-388	4
β-strand	395-397	3	18
β-strand	400-402	3	16
α-helix	408-412	5
α-helix	416-422	7
β-strand	427-433	7	16
α-helix	440-444	5
β-strand	446	1	19
β-strand	451	1	19
α-helix	453-468	16
α-helix	469-471	3
β-strand	473-484	12	16
β-strand	489-491	3	16
β-strand	502-504	3	20
β-strand	512-514	3	20
β-strand	520-522	3	16
α-helix	525-539	15
α-helix	550-552	3
β-strand	554-565	12	16
β-strand	569-580	12	16
α-helix	581-583	3
α-helix	600-614	15
α-helix	622-624	3
α-helix	626-630	5
α-helix	632-635	4
β-strand	640-647	8	16
β-strand	650	1	17
α-helix	654-668	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Tubulin alpha-1B chain	A	protein	451	Sus scrofa	Q2XVP4 (AlphaFold model)
Tubulin beta chain	B	protein	444	Sus scrofa	Q767L7 (AlphaFold model)
Protein claret segregational	C, D	protein	409	Drosophila melanogaster	P20480 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>8YY5_1 Tubulin alpha-1B chain (chains A)
MRECISIHVGQAGVQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGK
HVPRAVFVDLEPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDLVLD
RIRKLADQCTGLQGFLVFHSFGGGTGSGFTSLLMERLSVDYGKKSKLEFSIYPAPQVSTA
VVEPYNSILTTHTTLEHSDCAFMVDNEAIYDICRRNLDIERPTYTNLNRLISQIVSSITA
SLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPVISAEKAYHEQLSVAEITNACFEPAN
QMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIATIKTKRSIQFVDWCPTGFKVGINYQPP
TVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDHKFDLMYAKRAFVHWYVGEGMEEGEFSE
AREDMAALEKDYEEVGVDSVEGEGEEEGEEY

Sequence of entity 2 (B), FASTA

>8YY5_2 Tubulin beta chain (chains B)
MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYYNEATGGKYV
PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV
RKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTVV
EPYNATLSVHQLVENTDETYCIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCL
RFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQVFDAKNMM
AACDPRHGRYLTVAAVFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNVKTAVCDIPPRG
LKMAVTFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVS
EYQQYQDATAEEEEDFGEEAEEEA

Sequence of entity 3 (C, D), FASTA

>8YY5_3 Protein claret segregational (chains C, D)
MHAALSTEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERKELHNTVMDLRGNIRV
FCRIRPPLESEENRMCCTWTYHDESTVELQSIDAQAKSKMGQQIFSFDQVFHPLSSQSDI
FEMVSPLIQSALDGYNICIFAYGQTGSGKTYTMDGVPESVGVIPRTVDLLFDSIRGYRNL
GWEYEIKATFLEIKNEVLYDLLSNEQKDMEIRMAKNNKNDIYVSNITEETVLDPNHLRHL
MHTAKMNRATASTAGNERSSRSHAVTKLELIGRHAEKQEISVGSINLVDLAGSESPKTST
RMTETKNINRSLSELTNVILALLQKQDHIPYRNSKLTHLLMPSLGGNSKTLMFINVSPFQ
DCFQESVKSLRFAASVNSCKMTKAKRNRYLNNSVANSSTQSNNSGNFDK

Ligands and cofactors

ID	Name	Formula	Copies
ALF	Tetrafluoroaluminate ion	Al F4	1
MG	Magnesium ion	Mg	2
ADP	Adenosine-5'-diphosphate	C10 H15 N5 O10 P2	2
GDP	Guanosine-5'-diphosphate	C10 H15 N5 O11 P2	1
GTP	Guanosine-5'-triphosphate	C10 H16 N5 O14 P3	1

Primary citation

Structural analysis of a motor with increased mechanical output reveals new transitions in kinesin microtubule motility. Shibata, S., Wang, M.Y., Imasaki, T. et al. Sci Rep (2026) 16:487-487. DOI 10.1038/s41598-025-28573-7 · PubMed

Other PDB entries of the same protein (UniProt Q2XVP4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9U6A 1.92 Å, Tubulin-DARPin D1 in complex with a flavone
5EZY 2.05 Å, Crystal structure of T2R-TTL-taccalonolide AJ complex
5YL2 2.09 Å, Crystal structure of T2R-TTL-Y28 complex
7TTF 2.1 Å, Tubulin-RB3_SLD in complex with compound 12k
5XKG 2.2 Å, Crystal structure of T2R-TTL-CH1 complex
7L05 2.21 Å, Complex of novel maytansinoid M24 bound to T2R-TTL (two tubulin alpha/beta heterodimers,…
9M1M 2.21 Å, Cryo-EM structure of the TBC-DEC-Arl2-alpha-beta-tubulin complex with GDP-AlFx
5JQG 2.24 Å, An apo tubulin-RB-TTL complex structure used for side-by-side comparison
9M1N 2.24 Å, Cryo-EM structure of the TBC-DC-Arl2-alpha-beta-tubulin complex with GDP-AlFx
5XKH 2.25 Å, Crystal structure of T2R-TTL-CF1 complex
7TTD 2.27 Å, Tubulin-RB3_SLD in complex with compound 12e
5JCB 2.3 Å, Microtubule depolymerizing agent podophyllotoxin derivative YJTSF1

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