SMTL ID : 8r9v.1

CryoEM structure of the primed actomyosin-5a complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-mer

Ligands

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

PO4.1: 9 residues within 4Å: Chain A: S.165, K.169, T.170, N.214, A.217, S.218, G.440 Ligands: MG.2, ADP.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.165, A:T.170, A:N.214, A:S.218, A:G.440 Salt bridges: A:K.169

4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 5 residues within 4Å: Chain A: K.169, T.170, S.218 Ligands: PO4.1, ADP.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.170, A:S.218 MG.5: 2 residues within 4Å: Chain B: D.155 Ligands: ADP.4 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Ligands: ADP.6 No protein-ligand interaction detected (PLIP) MG.9: 3 residues within 4Å: Chain D: Q.138, D.155 Ligands: ADP.8 No protein-ligand interaction detected (PLIP)

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

ADP.3: 20 residues within 4Å: Chain A: I.99, Y.100, N.111, P.112, E.114, Q.115, Y.119, E.164, S.165, G.166, A.167, G.168, K.169, T.170, V.171, Y.175, N.214, N.216 Ligands: PO4.1, MG.2 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:N.111, A:L.116, A:Y.119, A:Y.119, A:E.164, A:E.164, A:G.166, A:A.167, A:G.168, A:K.169, A:T.170, A:T.170, A:V.171, A:N.214 Salt bridges: A:K.169 ADP.4: 19 residues within 4Å: Chain B: D.12, G.14, S.15, G.16, L.17, K.19, G.157, D.158, G.183, R.211, K.214, E.215, G.302, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.5 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:D.12, B:S.15, B:G.16, B:L.17, B:D.158, B:D.158, B:K.214, B:E.215, B:E.215, B:G.303, B:T.304 Salt bridges: B:K.19, B:K.19, B:K.337, B:K.337 ADP.6: 18 residues within 4Å: Chain C: D.12, G.14, S.15, G.16, L.17, K.19, G.157, D.158, G.183, K.214, E.215, G.302, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.7 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:D.12, C:S.15, C:G.16, C:L.17, C:D.158, C:D.158, C:K.214, C:E.215, C:E.215, C:G.303, C:T.304, C:K.337 Salt bridges: C:K.19, C:K.19 pi-Stacking: C:Y.307 ADP.8: 17 residues within 4Å: Chain D: D.12, G.14, S.15, G.16, L.17, G.157, D.158, G.183, K.214, E.215, G.302, G.303, T.304, M.306, Y.307, K.337 Ligands: MG.9 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:D.12, D:S.15, D:G.16, D:L.17, D:D.158, D:D.158, D:K.214, D:E.215, D:G.303, D:T.304, D:T.304

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klebl, D.P. et al., Swinging lever mechanism of myosin directly demonstrated by time-resolved cryoEM. To Be Published

Release Date

2024-12-11

Peptides

Unconventional myosin-Va: A
Actin, alpha skeletal muscle: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Unconventional myosin-Va

Actin, alpha skeletal muscle

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