SMTL ID : 6yu1.1 (1 other biounit)

CLK3 bound with beta-carboline KH-CARB13 (Cpd 3)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: H.207, G.226, W.227 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.227 Water bridges: A:H.207, A:W.227 EDO.2: 7 residues within 4Å: Chain A: E.263, P.268, I.269, I.274, G.286, G.287, L.288 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.269, A:L.288 EDO.5: 3 residues within 4Å: Chain A: I.269, P.270, S.271 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.271 EDO.6: 2 residues within 4Å: Chain A: E.13, D.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.13 EDO.7: 4 residues within 4Å: Chain A: V.319, D.323, H.345, P.346 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.320 EDO.8: 3 residues within 4Å: Chain A: R.278, K.279, K.281 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.278, A:R.278, A:K.281, A:K.281 EDO.9: 3 residues within 4Å: Chain A: H.135, V.187, K.188 No protein-ligand interaction detected (PLIP)

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

PO4.3: 3 residues within 4Å: Chain A: H.206, T.208, T.209 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.208, A:T.209, A:T.209 Water bridges: A:I.210 Salt bridges: A:H.206 PO4.4: 3 residues within 4Å: Chain A: R.65, K.69, Y.70 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.65, A:K.69

1 x KHC: (4~{S})-7,8-bis(chloranyl)-9-methyl-1-oxidanylidene-spiro[2,4-dihydropyrido[3,4-b]indole-3,4'-piperidine]-4-carbonitrile(Non-covalent)

KHC.10: 13 residues within 4Å: Chain A: L.38, V.46, A.60, K.62, F.112, E.113, L.114, L.115, G.116, K.117, N.118, E.121, L.166 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.38, A:V.46, A:L.114 Hydrogen bonds: A:L.115, A:L.115, A:N.118

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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