SMTL ID : 4pms.1

The structure of TrkA kinase bound to the inhibitor 4-naphthalen-1-yl-1-[(5-phenyl-1,2,4-oxadiazol-3-yl)methyl]-1H-pyrrolo[3,2-c]pyridine-2-carboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x 31X: 4-(naphthalen-1-yl)-1-[(5-phenyl-1,2,4-oxadiazol-3-yl)methyl]-1H-pyrrolo[3,2-c]pyridine-2-carboxylic acid(Non-covalent)

31X.1: 16 residues within 4Å: Chain A: L.16, V.24, A.42, K.44, L.64, I.72, V.73, F.89, E.90, D.96, L.157, G.167, D.168, F.169, G.170, M.171 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.16, A:V.24, A:L.64, A:I.72, A:V.73, A:F.89, A:F.89, A:D.96, A:L.157, A:F.169, A:F.169, A:F.169, A:F.169 Hydrogen bonds: A:G.170, A:M.171 Salt bridges: A:K.44 pi-Stacking: A:F.169

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

CL.2: 2 residues within 4Å: Chain A: P.254, Y.257 Ligand excluded by PLIP

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 3 residues within 4Å: Chain A: R.149, R.202, F.204 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.202, A:F.204 Salt bridges: A:R.149, A:R.202 ACT.4: 4 residues within 4Å: Chain A: R.102, K.225, Q.226, Y.229 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.225 Hydrogen bonds: A:G.224, A:Q.226 Salt bridges: A:R.102 ACT.5: 6 residues within 4Å: Chain A: W.218, T.222, K.225, Y.229, E.247, P.249 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.218, A:Y.229 Hydrogen bonds: A:Y.229 Water bridges: A:K.225, A:K.225 Salt bridges: A:K.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stachel, S.J. et al., Maximizing diversity from a kinase screen: identification of novel and selective pan-Trk inhibitors for chronic pain. J.Med.Chem. (2014)

Release Date

2014-06-18

Peptides

High affinity nerve growth factor receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

High affinity nerve growth factor receptor

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