SMTL ID : 9fu2.1

Smooth Muscle Myosin II in complex with MT-228

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.58 Å

Oligo State

monomer

Ligands

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

ADP.1: 23 residues within 4Å: Chain A: I.114, Y.115, N.126, P.127, Y.128, K.129, H.130, L.131, Y.134, E.179, S.180, G.181, A.182, G.183, K.184, T.185, E.186, N.187, N.236, N.238 Ligands: VO4.2, MG.3, EDO.11 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:N.126, A:Y.134, A:G.181, A:A.182, A:G.183, A:K.184, A:T.185, A:E.186, A:E.186, A:N.236, A:N.238 Water bridges: A:T.185, A:S.240, A:S.240, A:D.459 Salt bridges: A:K.184

1 x VO4: VANADATE ION(Non-covalent)

VO4.2: 11 residues within 4Å: Chain A: S.180, G.181, K.184, N.236, S.239, S.240, R.241, A.461, G.462 Ligands: ADP.1, MG.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.180, A:G.181, A:K.184, A:N.236, A:S.239, A:S.239, A:S.240, A:R.241, A:G.462 Water bridges: A:S.180, A:G.462

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: T.185, S.240 Ligands: ADP.1, VO4.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.185, A:S.240, H2O.1, H2O.1

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 7 residues within 4Å: Chain A: E.179, K.235, F.463, E.464, I.465, A.581, H.683 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.235, A:I.465 Water bridges: A:E.179 Salt bridges: A:E.179 DMS.10: 6 residues within 4Å: Chain A: E.170, D.171, R.669, N.670, T.671, T.672 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.170 DMS.13: 2 residues within 4Å: Chain A: F.304, F.314 No protein-ligand interaction detected (PLIP)

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 6 residues within 4Å: Chain A: F.245, R.247, E.262, F.454, K.663, T.667 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.247 Water bridges: A:F.245, A:R.247 EDO.6: 8 residues within 4Å: Chain A: R.241, E.267, S.269, R.270, S.470, E.472, Q.473, K.594 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.267, A:E.267, A:E.267, A:Q.473 EDO.7: 8 residues within 4Å: Chain A: F.419, A.420, V.421, A.423, L.424, P.598, L.599, N.600 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.600 EDO.9: 6 residues within 4Å: Chain A: K.482, Q.485, L.486, H.489, I.519, M.665 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.489 EDO.11: 10 residues within 4Å: Chain A: N.126, Y.128, G.181, K.235, N.236, D.237, N.238, I.680, K.685 Ligands: ADP.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.128, A:Y.128, A:D.237, A:D.237 EDO.12: 11 residues within 4Å: Chain A: Q.274, E.278, R.279, T.280, Y.285, L.310, S.311, N.312, G.313, F.314, V.315 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.274, A:Y.285, A:N.312, A:G.313

1 x 01: (3~{a}~{S})-1-(2-methoxypyridin-4-yl)-6,7-dimethyl-3~{a}-oxidanyl-2,3-dihydropyrrolo[2,3-b]quinolin-4-one

01.8: 21 residues within 4Å: Chain A: R.241, F.242, G.243, Y.264, L.265, L.266, E.267, K.268, L.458, I.460, A.461, F.471, E.472, C.475, I.476, T.479, V.653, Y.657, Q.660, L.661, L.664 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.264, A:Y.264, A:Y.264, A:Y.264, A:A.461, A:I.476, A:T.479, A:Y.657, A:Q.660, A:L.661, A:L.664 Hydrogen bonds: A:G.243, A:L.265, A:A.461

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.14: 5 residues within 4Å: Chain A: L.120, F.121, P.673, N.674, F.675 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Radnai, L. et al., Development of clinically viable non-muscle myosin II small molecule inhibitors. Cell (2025)

Release Date

2025-07-09

Peptides

Myosin-11: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myosin-11