SMTL ID : 6z50.1

Crystal structure of CLK1 in complex with macrocycle ODS2003208

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x Q7K: 11,15-dimethyl-6-(oxan-4-yloxy)-8-oxa-2,11,15,19,21,23-hexazatetracyclo[15.6.1.13,7.020,24]pentacosa-1(23),3(25),4,6,17,20(24),21-heptaen-10-one(Non-covalent)

Q7K.1: 15 residues within 4Å: Chain A: L.22, G.23, F.27, V.30, A.44, K.46, V.80, F.96, E.97, L.98, L.99, D.105, N.148, L.150, V.179 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.22, A:V.30, A:K.46, A:L.150 Hydrogen bonds: A:E.97, A:L.99

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

EDO.2: 3 residues within 4Å: Chain A: V.11, S.13, A.14 Ligand excluded by PLIP EDO.3: 3 residues within 4Å: Chain A: S.13, R.15, E.84 Ligand excluded by PLIP EDO.4: 8 residues within 4Å: Chain A: L.68, N.69, D.72, S.75, C.79, V.80, Q.81, F.133 Ligand excluded by PLIP EDO.5: 6 residues within 4Å: Chain A: L.98, L.99, G.100, V.152, Q.153, S.154 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: D.143, S.183, S.196, T.197 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: E.56, R.59, S.60 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: E.87, H.88, H.89 Ligand excluded by PLIP EDO.9: 6 residues within 4Å: Chain A: F.106, I.107, N.110, L.113, P.114, F.115 Ligand excluded by PLIP EDO.10: 6 residues within 4Å: Chain A: A.318, K.319, R.320, I.321, T.322, E.325 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: D.187, H.191, S.212, Q.213 Ligand excluded by PLIP EDO.12: 4 residues within 4Å: Chain A: W.274, D.275, S.278 Ligands: EDO.15 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain A: D.238, E.241, A.280 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain A: R.78, K.122, Y.125, Q.126 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain A: K.240, D.273, W.274, D.275 Ligands: EDO.12 Ligand excluded by PLIP EDO.16: 3 residues within 4Å: Chain A: D.299, E.301, H.302 Ligand excluded by PLIP EDO.17: 8 residues within 4Å: Chain A: R.198, R.201, I.206, T.236, H.237, D.238, S.239, H.242 Ligand excluded by PLIP EDO.21: 4 residues within 4Å: Chain A: R.248, E.276, H.277, S.285 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.18: 3 residues within 4Å: Chain A: E.17, I.34, H.36 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.17 Water bridges: A:E.17 GOL.19: 4 residues within 4Å: Chain A: D.187, D.188, E.189, H.190 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.187 Water bridges: A:H.191, A:H.191

1 x NA: SODIUM ION(Non-functional Binders)

NA.20: 6 residues within 4Å: Chain A: E.301, R.304, P.330, F.331, D.333, L.334 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.301, A:R.304, A:D.333, A:L.334

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chaikuad, A. et al., Crystal structure of CLK1 in complex with macrocycle ODS2003208. To Be Published

Release Date

2020-06-03

Peptides

Dual specificity protein kinase CLK1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dual specificity protein kinase CLK1

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