SMTL ID : 6ytw.1 (1 other biounit)

CLK3 bound with benzothiazole Tg003 (Cpd 2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: S.8, S.11, V.21, D.26, W.27 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.21, A:W.27, A:W.27 EDO.2: 3 residues within 4Å: Chain A: V.21, C.22, R.23 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.22, A:R.23 Water bridges: A:C.22 EDO.3: 5 residues within 4Å: Chain A: R.75, I.78, N.79, K.82, W.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.75, A:K.82, A:K.82 EDO.4: 3 residues within 4Å: Chain A: T.209, E.224, R.278 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.224 EDO.5: 5 residues within 4Å: Chain A: T.158, S.199, T.201, I.210, V.211 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.199, A:T.201 Water bridges: A:S.199 EDO.6: 6 residues within 4Å: Chain A: R.327, A.334, Q.335, R.336, I.337, E.341 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.327, A:Q.335 Water bridges: A:R.327 EDO.7: 2 residues within 4Å: Chain A: E.330, Q.335 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.330, A:Q.335 Water bridges: A:F.331 EDO.8: 4 residues within 4Å: Chain A: R.245, K.305, S.309, Y.310 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.245, A:R.245 Water bridges: A:Y.310 EDO.9: 7 residues within 4Å: Chain A: E.263, P.268, I.269, I.274, G.286, G.287, L.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.269, A:L.288 Water bridges: A:E.263

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

CL.10: 3 residues within 4Å: Chain A: R.278, K.279, K.281 Ligand excluded by PLIP

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.11: 3 residues within 4Å: Chain A: R.65, K.69, Y.70 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.70, A:Y.70, A:Y.70 Salt bridges: A:R.65, A:K.69

1 x EAE: (1~{Z})-1-(3-ethyl-5-methoxy-1,3-benzothiazol-2-ylidene)propan-2-one(Non-covalent)

EAE.12: 10 residues within 4Å: Chain A: F.43, V.46, A.60, K.62, V.96, F.112, E.113, L.114, L.115, G.116 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.43, A:V.46, A:A.60, A:V.96, A:F.112 Hydrogen bonds: A:K.62, A:L.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schroder, M. et al., DFG-1 Residue Controls Inhibitor Binding Mode and Affinity, Providing a Basis for Rational Design of Kinase Inhibitor Selectivity. J.Med.Chem. (2020)

Release Date

2020-07-15

Peptides

Dual specificity protein kinase CLK3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dual specificity protein kinase CLK3

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