SMTL ID : 6fng.1

Crystal Structure of Ephrin A2 (EphA2) Receptor Protein Kinase with an isomer of NVP-BHG712

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.04 Å

Oligo State

monomer

Ligands

1 x DWT: 4-methyl-3-[(2-methyl-6-pyridin-3-yl-pyrazolo[3,4-d]pyrimidin-4-yl)amino]-~{N}-[3-(trifluoromethyl)phenyl]benzamide(Non-covalent)

DWT.1: 21 residues within 4Å: Chain A: A.27, V.33, A.50, K.52, E.69, M.73, F.76, I.81, I.82, I.96, T.98, Y.100, M.101, L.136, Y.141, H.143, L.152, V.161, S.162, D.163, F.164 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:A.50, A:K.52, A:E.69, A:I.82, A:I.96, A:T.98, A:Y.100, A:Y.141, A:F.164 Hydrogen bonds: A:E.69, A:T.98, A:M.101, A:D.163 Water bridges: A:K.52

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

EDO.2: 9 residues within 4Å: Chain A: I.187, R.188, T.190, I.195, W.207, V.232, M.233, I.236 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.188, A:T.190 EDO.3: 5 residues within 4Å: Chain A: A.137, N.138, K.269, F.270, A.271 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.270, A:A.271 EDO.4: 5 residues within 4Å: Chain A: P.192, S.196, M.233, N.237 Ligands: EDO.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.237 Water bridges: A:Q.262 EDO.5: 4 residues within 4Å: Chain A: G.115, E.116, F.117, S.118 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.115 Water bridges: A:S.118 EDO.6: 3 residues within 4Å: Chain A: E.112, K.113, E.116 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.113 EDO.7: 1 residues within 4Å: Chain A: K.279 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Troster, A. et al., NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. ChemMedChem (2018)

Release Date

2018-08-08

Peptides

Ephrin type-A receptor 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ephrin type-A receptor 2

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