SMTL ID : 8w41.1

Cryo-EM structure of Myosin VI in the autoinhibited state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-mer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.130, D.134, Q.136, V.137, N.138, E.141 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.130, A:D.134, A:Q.136, A:E.141, A:E.141 CA.2: 5 residues within 4Å: Chain A: D.94, D.96, N.98, Y.100, E.105 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.96, A:D.96, A:Y.100, A:E.105, A:E.105 CA.3: 5 residues within 4Å: Chain A: D.21, D.23, D.25, T.27, I.28 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.27 CA.4: 4 residues within 4Å: Chain A: D.57, D.59, N.61, T.63 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.63, A:T.63

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.5: 20 residues within 4Å: Chain C: Y.87, N.98, P.99, F.101, Y.107, E.152, G.154, A.155, G.156, K.157, T.158, E.159, F.163, N.200, N.202, S.204, D.308, P.309 Ligands: MG.6, PO4.7 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:N.98, C:F.101, C:Y.107, C:Y.107, C:G.154, C:A.155, C:G.156, C:K.157, C:T.158, C:E.159, C:N.200, C:N.202, C:S.204, C:D.308 Salt bridges: C:K.157

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 4 residues within 4Å: Chain C: T.158, S.204 Ligands: ADP.5, PO4.7 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:T.158, C:S.204

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 11 residues within 4Å: Chain C: E.152, S.153, G.154, K.157, N.200, S.203, S.204, A.458, G.459 Ligands: ADP.5, MG.6 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:G.154, C:N.200, C:S.204, C:G.459, C:G.459 Salt bridges: C:K.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niu, F. et al., Autoinhibition and activation of myosin VI revealed by its cryo-EM structure. Nat Commun (2024)

Release Date

2024-02-21

Peptides

Calmodulin-1: AB
Unconventional myosin-VI: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
I

C
A

Calmodulin-1

Unconventional myosin-VI

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