SMTL ID : 8bzp.2 (1 other biounit)

JNK3 (Mitogen-activated protein kinase 10) in Complex with Compound 23 bearing a C(sp3)F2Br moiety

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

monomer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: K.140, H.143, S.144, E.204, D.313 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.140 Water bridges: A:E.204 GOL.5: 5 residues within 4Å: Chain A: K.203, N.205, P.306, A.307, R.309 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.203, A:K.203 Water bridges: A:S.311, A:S.311 GOL.6: 6 residues within 4Å: Chain A: R.189, G.227, R.228, D.229, Y.230, Q.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.233 GOL.7: 5 residues within 4Å: Chain A: S.144, A.145, P.335, Q.336, I.337 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.336, A:I.337, A:I.337 GOL.8: 3 residues within 4Å: Chain A: N.114, S.155 Ligands: SWM.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.114, A:S.155

1 x SWM: 2-bromanyl-2,2-bis(fluoranyl)-~{N}-(5-pyridin-4-yl-1,3,4-thiadiazol-2-yl)ethanamide(Non-covalent)

SWM.2: 9 residues within 4Å: Chain A: V.40, A.53, K.55, M.108, E.109, L.110, M.111, L.168 Ligands: GOL.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.53, A:L.168 Hydrogen bonds: A:M.111

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

EDO.3: 5 residues within 4Å: Chain A: V.80, N.81, H.141, P.333, P.335 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.79, A:N.81 EDO.4: 6 residues within 4Å: Chain A: H.125, E.126, S.129, K.290, Y.320, V.323 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.129, A:Y.320

2 x C15: N-DODECYL-N,N-DIMETHYL-3-AMMONIO-1-PROPANESULFONATE(Non-covalent)

C15.9: 6 residues within 4Å: Chain A: M.111, D.112, M.121, V.159, K.160, C.163 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.159 Hydrogen bonds: A:D.112, A:D.112 C15.10: 8 residues within 4Å: Chain A: I.197, L.198, Y.230, I.231, W.234, T.255, V.256, Y.259 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.197, A:L.198, A:I.231, A:W.234, A:V.256, A:Y.259

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

CL.11: 4 residues within 4Å: Chain A: E.204, N.205, S.311, V.312 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vaas, S. et al., Principles and Applications of CF 2 X Moieties as Unconventional Halogen Bond Donors in Medicinal Chemistry, Chemical Biology, and Drug Discovery. J.Med.Chem. (2023)

Release Date

2023-08-02

Peptides

Mitogen-activated protein kinase 10: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Mitogen-activated protein kinase 10

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