SMTL ID : 7dhw.1

Crystal structure of myosin-XI motor domain in complex with ADP-ALF4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: R.274, S.275, E.480 No protein-ligand interaction detected (PLIP) MG.2: 5 residues within 4Å: Chain A: T.196, S.246, D.467 Ligands: ALF.3, ADP.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.196, A:S.246, H2O.1, H2O.1

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 12 residues within 4Å: Chain A: S.191, G.192, K.195, T.196, N.242, S.245, S.246, I.468, Y.469, G.470 Ligands: MG.2, ADP.4 No protein-ligand interaction detected (PLIP)

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

ADP.4: 18 residues within 4Å: Chain A: Y.125, N.136, P.137, F.138, R.139, Y.145, E.190, G.192, A.193, G.194, K.195, T.196, E.197, N.242, N.244 Ligands: MG.2, ALF.3, GOL.8 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:Y.125, A:N.136, A:Y.145, A:G.192, A:A.193, A:G.194, A:K.195, A:T.196, A:T.196, A:E.197, A:N.242, A:N.242 Water bridges: A:E.197, A:E.197, A:S.246, A:S.246 Salt bridges: A:K.195

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: D.52, E.53, E.675, N.676, E.677, N.678 Ligands: GOL.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.52, A:E.53, A:E.677, A:N.678 GOL.6: 2 residues within 4Å: Chain A: E.53 Ligands: GOL.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.53 GOL.7: 6 residues within 4Å: Chain A: T.269, Y.270, L.271, L.272, S.439, D.443 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.269, A:T.269, A:L.272, A:S.439 GOL.8: 3 residues within 4Å: Chain A: Y.145, E.197 Ligands: ADP.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.141, A:E.197, A:R.204

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haraguchi, T. et al., Discovery of ultrafast myosin, its amino acid sequence, and structural features. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2021-05-19

Peptides

Motor domain of myosin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Motor domain of myosin