2BKI: Unconventional myosin

Myosin VI nucleotide-free (MDinsert2-IQ) crystal structure. Determined by X-ray diffraction at 2.9 Å resolution. Released 7 Jun 2005.

Method: X-ray diffraction
Resolution: 2.9 Å
Organisms: SUS SCROFA, GALLUS GALLUS
Chains: 3
Atoms: 8,049
Mol. weight: 132.25 kDa
Ligands: CA
Released: 7 Jun 2005

Explore 2BKI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2BKI contains 60 α-helices and 33 β-strands across 3 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: 46 helices, 29 β-strands

Element	Residues	Length	Sheet
β-strand	7-11	5	1
β-strand	15-23	9	1
β-strand	28-33	6	1
β-strand	41-44	4	1
α-helix	45-47	3
β-strand	49-50	2	1
α-helix	51-52	2
β-strand	61	1	2
α-helix	62-64	3
α-helix	70-81	12
β-strand	87-90	4	2
β-strand	93-97	5	2
α-helix	109-115	7
α-helix	127-140	14
β-strand	145-150	6	2
α-helix	157-172	16
α-helix	178-184	7
α-helix	186-193	8
β-strand	194-195	2	3
β-strand	203-204	2	3
β-strand	207-214	8	2
β-strand	220-228	9	2
α-helix	233-235	3
β-strand	245	1	3
α-helix	246-254	9
α-helix	257-262	6
α-helix	268-270	3
α-helix	272-275	4
α-helix	280-281	2
β-strand	282	1	4
α-helix	285-290	6
α-helix	293-295	3
α-helix	298-302	5
α-helix	305	1
β-strand	306	1	4
α-helix	307	1
α-helix	313-327	15
α-helix	331-349	19
β-strand	352-354	3	5
β-strand	362-364	3	5
α-helix	369-378	10
α-helix	383-389	7
β-strand	392-396	5	6
β-strand	406-410	5	6
α-helix	411-412	2
α-helix	413-440	28
β-strand	450-456	7	2
β-strand	466	1	7
α-helix	468-498	31
α-helix	512-519	8
α-helix	525-532	8
α-helix	540-550	11
β-strand	557-558	2	7
α-helix	560-562	3
β-strand	576-580	5	7
β-strand	585-589	5	7
α-helix	593-596	4
α-helix	603-610	8
α-helix	615-620	6
α-helix	623-628	6
α-helix	633-637	5
α-helix	643-659	17
β-strand	662-669	8	2
α-helix	682-691	10
α-helix	694-702	9
β-strand	707-710	4	8
α-helix	711-718	8
α-helix	719-721	3
α-helix	724-728	5
α-helix	731-742	12
β-strand	749-751	3	8
β-strand	755-758	4	8
α-helix	763-772	10
α-helix	774-782	9
α-helix	785-816	32

Chain B: 8 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	6-19	14
β-strand	27	1	9
α-helix	29-38	10
α-helix	47-55	9
β-strand	63	1	9
α-helix	65-72	8
α-helix	80-92	13
β-strand	99-100	2	10
α-helix	102-112	11
α-helix	118-128	11
β-strand	136-137	2	10
α-helix	138-146	9

Chain D: 6 helices, 0 β-strands

Element	Residues	Length
α-helix	7-15	9
α-helix	46-48	3
α-helix	71-77	7
α-helix	82-89	8
α-helix	107-111	5
α-helix	118-122	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Unconventional myosin	A	protein	858	SUS SCROFA	Q29122 (AlphaFold model)
Calmodulin	B, D	protein	149	GALLUS GALLUS	P62149 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2BKI_1 UNCONVENTIONAL MYOSIN (chains A)
MEDGKPVWAPHPTDGFQVGNIVDIGPDSLTIEPLNQKGKTFLALINQVFPAEEDSKKDVE
DNCSLMYLNEATLLHNIKVRYSKDRIYTYVANILIAVNPYFDIPKIYSSETIKSYQGKSL
GTMPPHVFAIADKAFRDMKVLKLSQSIIVSGESGAGKTENTKFVLRYLTESYGTGQDIDD
RIVEANPLLEAFGNAKTVRNNNSSRFGKFVEIHFNEKSSVVGGFVSHYLLEKSRICVQGK
EERNYHIFYRLCAGASEDIRERLHLSSPDNFRYLNRGCTRYFANKETDKQILQNRKSPEY
LKAGSLKDPLLDDHGDFIRMCTAMKKIGLDDEEKLDLFRVVAGVLHLGNIDFEEAGSTSG
GCNLKNKSTQALEYCAELLGLDQDDLRVSLTTRVMLTTAGGAKGTVIKVPLKVEQANNAR
DALAKTVYSHLFDHVVNRVNQCFPFETSSYFIGVLDIAGFEYFEHNSFEQFCINYCNEKL
QQFFNERILKEEQELYQKEGLGVNEVHYVDNQDCIDLIEARLVGILDILDEENRLPQPSD
QHFTSAVHQKHKDHFRLSIPRKSKLAIHRNIRDDEGFIIRHFAGAVCYETTQFVEKNNDA
LHMSLESLICESRDKFIRELFESSTNNNKDTKQKAGKLSFISVGNKFKTQLNLLLDKLRS
TGASFIRCIKPNLKMTSHHFEGAQILSQLQCSGMVSVLDLMQGGFPSRASFHELYNMYKK
YMPDKLARLDPRLFCKALFKALGLNEIDYKFGLTKVFFRPGKFAEFDQIMKSDPDHLAEL
VKRVNHWLICSRWKKVQWCSLSVIKLKNKIKYRAEACIKMQKTIRMWLCKRRHKPRIDGL
VKVGTLKKRLDKFNEVVS

Sequence of entity 2 (B, D), FASTA

>2BKI_2 CALMODULIN (chains B, D)
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVQMMTAK

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	4

Water and common crystallization additives (SO4) are not listed.

Primary citation

The Structure of the Myosin Vi Motor Reveals the Mechanism of Directionality Reversal. Menetrey, J., Bahloul, A., Wells, A. et al. Nature (2005) 435:779. DOI 10.1038/NATURE03592 · PubMed

Other PDB entries of the same protein (UniProt Q29122 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2V26 1.75 Å, Myosin VI (MD) pre-powerstroke state (Mg.ADP.VO4)
4DBR 1.95 Å, Myosin VI D179Y (MD) pre-powerstroke state
2X51 2.2 Å, M6 delta Insert1
3L9I 2.2 Å, Myosin VI nucleotide-free (mdinsert2) L310G mutant crystal structure
4DBP 2.2 Å, Myosin VI nucleotide-free (MDINSERT2) D179Y crystal structure
5O2L 2.2 Å, Myosin VI motor domain in the Pre-Transition State
2VB6 2.3 Å, Myosin VI (MD-insert2-CaM, Delta Insert1) Post-rigor state (crystal form 2)
2BKH 2.4 Å, Myosin VI nucleotide-free (MDInsert2) crystal structure
2VAS 2.4 Å, Myosin VI (MD-insert2-CaM, Delta-Insert1) Post-rigor state
4ANJ 2.6 Å, MYOSIN VI (MDinsert2-GFP fusion) PRE-POWERSTROKE STATE (MG.ADP.AlF4)
4DBQ 2.6 Å, MYOSIN VI D179Y (MD-INSERT2-CAM, DELTA-INSERT1) post-rigor state
3GN4 2.7 Å, Myosin lever arm

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