SMTL ID : 7lqd.1 (1 other biounit)

Structure of Human MPS1 (TTK) covalently bound to RMS-07 inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x YB4: ~{N}-(2,6-diethylphenyl)-2-[[4-(4-methylpiperazin-1-yl)-2-(propanoylamino)phenyl]amino]-5,6-dihydropyrimido[4,5-e]indolizine-7-carboxamide(Covalent)

YB4.1: 25 residues within 4Å: Chain A: I.36, G.39, S.42, K.43, V.44, Q.46, I.54, A.56, K.58, I.91, M.107, E.108, C.109, G.110, N.111, I.112, D.113, S.116, A.156, L.159, I.168, D.169, M.176 Ligands: GOL.3, TOE.7 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.44, A:I.54, A:A.56, A:I.91, A:I.168 Hydrogen bonds: A:Q.46, A:G.110, A:G.110, A:G.110 pi-Cation interactions: A:K.58

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: N.81, Y.96 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.81, A:N.81 GOL.3: 7 residues within 4Å: Chain A: K.58, E.76, M.105, D.169, A.173, M.176 Ligands: YB4.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.58, A:D.169, A:D.169 Water bridges: A:K.58 GOL.4: 8 residues within 4Å: Chain A: D.152, L.153, T.191, V.192, N.193, Y.194, M.195, S.224 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.153, A:L.153, A:T.191, A:V.192, A:Y.194, A:S.224 GOL.5: 5 residues within 4Å: Chain A: I.54, Y.55, Y.94, E.108, C.109 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.55, A:C.109, A:C.109 Water bridges: A:E.108, A:E.108 GOL.6: 5 residues within 4Å: Chain A: R.28, Y.30, N.49, Y.55, D.95 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.49, A:Y.55, A:Y.55, A:D.95, A:D.95 Water bridges: A:R.28

1 x TOE: 2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXYL(Non-covalent)

TOE.7: 11 residues within 4Å: Chain A: S.38, G.39, H.150, D.152, K.154, N.157, D.169, G.171, A.173, N.174 Ligands: YB4.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.38, A:D.152, A:N.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

M Serafim, R.A. et al., Development of the First Covalent Monopolar Spindle Kinase 1 (MPS1/TTK) Inhibitor. J.Med.Chem. (2022)

Release Date

2022-02-16

Peptides

Dual specificity protein kinase TTK or monopolar spindle 1 kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dual specificity protein kinase TTK or monopolar spindle 1 kinase

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