SMTL ID : 5h3q.1

Crystal Structure of TrkA kinase with ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x 7HF: 1-[(3S,4R)-4-[3,4-bis(fluoranyl)phenyl]-1-(2-methoxyethyl)pyrrolidin-3-yl]-3-(5-ethoxy-4-methyl-2-phenyl-pyrazol-3-yl)urea(Non-covalent)

7HF.1: 21 residues within 4Å: Chain A: L.14, G.16, H.17, I.18, N.21, F.49, K.72, E.88, L.95, V.101, M.115, F.117, L.169, F.174, V.175, H.176, G.195, D.196, F.197, G.198, R.201 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.14, A:I.18, A:I.18, A:F.49, A:K.72, A:L.95, A:F.117, A:L.169 Hydrogen bonds: A:I.18, A:D.196, A:D.196, A:D.196 Salt bridges: A:D.196 pi-Stacking: A:H.17, A:H.176 pi-Cation interactions: A:K.72 Halogen bonds: A:V.175

2 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.2: 8 residues within 4Å: Chain A: R.35, C.107, T.108, E.109, G.110, R.111, P.112, L.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.35, A:E.109, A:P.112 DTT.3: 6 residues within 4Å: Chain A: L.259, E.263, D.266, C.267, Q.270, R.272 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: R.177, F.232, S.236, D.237 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.177, A:S.236 Water bridges: A:S.240

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furuya, N. et al., The juxtamembrane region of TrkA kinase is critical for inhibitor selectivity. Bioorg. Med. Chem. Lett. (2017)

Release Date

2017-02-22

Peptides

High affinity nerve growth factor receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

High affinity nerve growth factor receptor