SMTL ID : 8ba3.1

Crystal structure of JAK2 JH2 in complex with Bemcentinib

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x Q8U: 1-(3,4-diazatricyclo[9.4.0.0^{2,7}]pentadeca-1(11),2(7),3,5,12,14-hexaen-5-yl)-~{N}3-[(7~{S})-7-pyrrolidin-1-yl-6,7,8,9-tetrahydro-5~{H}-benzo[7]annulen-3-yl]-1,2,4-triazole-3,5-diamine(Non-covalent)

Q8U.1: 27 residues within 4Å: Chain A: L.16, Q.18, G.19, T.20, T.22, I.24, L.44, K.46, V.75, Q.91, E.92, F.93, V.94, K.95, F.96, G.97, S.98, T.101, K.105, N.138, K.142, N.143, L.145, S.163, D.164, P.165, G.166 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.16, A:L.16, A:I.24, A:K.46, A:F.93, A:L.145 Hydrogen bonds: A:E.92, A:V.94, A:V.94 Water bridges: A:K.46 pi-Cation interactions: A:K.46

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: A.239, A.243, A.246, N.247, N.250 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.247, A:N.247, A:N.247, A:N.250 GOL.3: 5 residues within 4Å: Chain A: F.12, F.25, V.47, E.86, I.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.86 GOL.4: 4 residues within 4Å: Chain A: K.72, I.147, R.148, F.159 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.148, A:R.148 GOL.5: 6 residues within 4Å: Chain A: N.138, C.140, K.142, R.180, W.183, K.217 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.138 Water bridges: A:N.138, A:R.180, A:R.180 GOL.6: 7 residues within 4Å: Chain A: W.209, C.212, S.213, P.238, A.239, P.240, K.241 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.212, A:A.239 Water bridges: A:A.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Virtanen, A.T. et al., Identification of Novel Small Molecule Ligands for JAK2 Pseudokinase Domain. Pharmaceuticals (2023)

Release Date

2023-02-01

Peptides

Tyrosine-protein kinase JAK2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase JAK2

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