SMTL ID : 6g3c.1 (1 other biounit)

Crystal Structure of JAK2-V617F pseudokinase domain in complex with Compound 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x EKT: 2-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]amino]-5,7,7-trimethyl-8-(3-methylbutyl)pteridin-6-one(Non-covalent)

EKT.1: 18 residues within 4Å: Chain A: L.15, G.16, I.23, L.43, K.45, V.74, Q.90, E.91, F.92, V.93, K.94, G.96, S.97, K.141, N.142, I.143, L.144, S.162 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.15, A:L.15, A:I.23, A:F.92, A:K.141, A:L.144 Hydrogen bonds: A:K.45, A:V.93, A:V.93, A:G.96, A:S.162 Halogen bonds: A:L.15

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

EDO.2: 4 residues within 4Å: Chain A: N.246, L.247, N.250, D.268 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.246, A:D.268 Water bridges: A:L.247 EDO.3: 4 residues within 4Å: Chain A: L.247, N.250, P.260, A.264 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.250, A:A.264 Water bridges: A:D.268 EDO.4: 4 residues within 4Å: Chain A: A.238, A.245, N.246 Ligands: EDO.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.246 Water bridges: A:N.249 EDO.5: 9 residues within 4Å: Chain A: W.208, L.236, P.237, A.238, P.239, A.245, I.248, N.249 Ligands: EDO.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.245, A:N.249 Water bridges: A:L.236, A:N.249 EDO.6: 2 residues within 4Å: Chain A: K.216, S.219 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.219, A:S.219 EDO.7: 3 residues within 4Å: Chain A: G.32, D.33 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.30, A:D.33 EDO.8: 2 residues within 4Å: Chain A: L.75 Ligands: EDO.7 No protein-ligand interaction detected (PLIP) EDO.9: 4 residues within 4Å: Chain A: N.137, C.139, R.179, W.182 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.137, A:N.137 Water bridges: A:R.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McNally, R. et al., Discovery and Structural Characterization of ATP-Site Ligands for the Wild-Type and V617F Mutant JAK2 Pseudokinase Domain. Acs Chem.Biol. (2019)

Release Date

2019-03-27

Peptides

Tyrosine-protein kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase

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