SMTL ID : 3h9f.1 (1 other biounit)

Crystal Structure of Human Dual Specificity Protein Kinase (TTK) in complex with a pyrimido-diazepin ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-tetramer

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: T.180, T.181, S.182 Chain C: T.180, T.181, S.182 Ligands: MG.7 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Metal complexes: A:S.182, C:S.182 MG.2: 3 residues within 4Å: Chain A: T.180 Chain C: T.181 Ligands: 92M.3 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Metal complexes: A:T.180, C:T.181 MG.4: 7 residues within 4Å: Chain B: T.180, T.181, S.182 Chain D: T.180, T.181, S.182 Ligands: MG.10 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Metal complexes: B:S.182, D:S.182 MG.5: 3 residues within 4Å: Chain B: T.180 Chain D: T.181 Ligands: 92M.6 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Metal complexes: B:T.180, D:T.181 MG.7: 7 residues within 4Å: Chain A: T.180, T.181, S.182 Chain C: T.180, T.181, S.182 Ligands: MG.1 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Metal complexes: A:S.182, C:S.182 MG.8: 3 residues within 4Å: Chain A: T.181 Chain C: T.180 Ligands: 92M.9 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Metal complexes: C:T.180, A:T.181 MG.10: 7 residues within 4Å: Chain B: T.180, T.181, S.182 Chain D: T.180, T.181, S.182 Ligands: MG.4 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Metal complexes: B:S.182, D:S.182 MG.11: 3 residues within 4Å: Chain B: T.181 Chain D: T.180 Ligands: 92M.12 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain B Metal complexes: D:T.180, B:T.181

4 x 92M: 9-cyclopentyl-2-(4-(4-hydroxypiperidin-1-yl)-2-methoxyphenylamino)-5-methyl-8,9-dihydro-5H-pyrimido[4,5-b][1,4]diazepin -6(7H)-one(Non-covalent)

92M.3: 21 residues within 4Å: Chain A: K.34, I.36, V.44, Q.46, A.56, I.91, M.107, E.108, C.109, G.110, N.111, I.112, D.113, S.116, L.159, I.168, D.169, Q.177, P.178 Chain C: T.181 Ligands: MG.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.36, A:L.159, A:I.168 Hydrogen bonds: A:G.110, A:G.110 92M.6: 21 residues within 4Å: Chain B: K.34, I.36, V.44, Q.46, A.56, I.91, M.107, E.108, C.109, G.110, N.111, I.112, D.113, S.116, L.159, I.168, D.169, Q.177, P.178 Chain D: T.181 Ligands: MG.5 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.36, B:L.159, B:I.168 Hydrogen bonds: B:G.110, B:G.110 92M.9: 21 residues within 4Å: Chain A: T.181 Chain C: K.34, I.36, V.44, Q.46, A.56, I.91, M.107, E.108, C.109, G.110, N.111, I.112, D.113, S.116, L.159, I.168, D.169, Q.177, P.178 Ligands: MG.8 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:I.36, C:L.159, C:I.168 Hydrogen bonds: C:G.110, C:G.110 Water bridges: C:D.169 92M.12: 21 residues within 4Å: Chain B: T.181 Chain D: K.34, I.36, V.44, Q.46, A.56, I.91, M.107, E.108, C.109, G.110, N.111, I.112, D.113, S.116, L.159, I.168, D.169, Q.177, P.178 Ligands: MG.11 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:I.36, D:L.159, D:I.168 Hydrogen bonds: D:G.110, D:G.110 Water bridges: D:D.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kwiatkowski, N. et al., Small-molecule kinase inhibitors provide insight into Mps1 cell cycle function. Nat.Chem.Biol. (2010)

Release Date

2009-05-19

Peptides

Dual specificity protein kinase TTK: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Dual specificity protein kinase TTK

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