SMTL ID : 2x2k.1

Crystal Structure of phosphorylated RET tyrosine kinase domain with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

6 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 6 residues within 4Å: Chain A: R.22, C.95, D.98, G.99, P.100, L.102 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.22, A:Q.97, A:D.98 FMT.2: 6 residues within 4Å: Chain A: R.174, L.196, K.208, G.212, R.213, I.214 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.174, A:R.174, A:R.198, A:R.213, A:R.213, A:R.213 FMT.3: 9 residues within 4Å: Chain A: Q.211, L.224, F.225, H.227, F.262 Chain B: G.1, P.2, L.3, S.4 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.211, A:H.227, B:G.1, B:L.3, B:S.4 FMT.5: 6 residues within 4Å: Chain B: R.22, C.95, D.98, G.99, P.100, L.102 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.22, B:Q.97, B:D.98 FMT.6: 6 residues within 4Å: Chain B: R.174, L.196, K.208, G.212, R.213, I.214 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.174, B:R.174, B:R.198, B:R.213, B:R.213, B:R.213 FMT.7: 9 residues within 4Å: Chain A: G.1, P.2, L.3, S.4 Chain B: Q.211, L.224, F.225, H.227, F.262 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.1, A:L.3, A:S.4, B:Q.211, B:H.227

2 x X2K: (3Z)-5-amino-3-[(3,5-dimethyl-1H-pyrrol-2-yl)methylidene]-1,3-dihydro-2H-indol-2-one(Non-covalent)

X2K.4: 12 residues within 4Å: Chain A: L.31, V.39, A.57, K.59, V.105, E.106, Y.107, A.108, K.109, G.111, L.182, D.193 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.31, A:V.39, A:V.39, A:V.105, A:Y.107, A:L.182 Hydrogen bonds: A:K.59, A:E.106, A:A.108, A:A.108 X2K.8: 12 residues within 4Å: Chain B: L.31, V.39, A.57, K.59, V.105, E.106, Y.107, A.108, K.109, G.111, L.182, D.193 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.31, B:V.39, B:V.39, B:V.105, B:Y.107, B:L.182 Hydrogen bonds: B:K.59, B:E.106, B:A.108, B:A.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mologni, L. et al., Synthesis, structure-activity relationship and crystallographic studies of 3-substituted indolin-2-one RET inhibitors. Bioorg. Med. Chem. (2010)

Release Date

2010-02-09

Peptides

PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROTO-ONCOGENE TYROSINE-PROTEIN KINASE RECEPTOR RET

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