SMTL ID : 6szm.2 (1 other biounit)

Crystal structure of the ACVR1 (ALK2) kinase in complex with the compound M4K2009

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

1 x M2Z: 1-[4-[4-methyl-5-(3,4,5-trimethoxyphenyl)pyridin-3-yl]phenyl]piperazine(Non-covalent)

M2Z.1: 22 residues within 4Å: Chain A: V.16, V.24, A.35, V.36, K.37, E.50, L.65, L.83, I.84, T.85, H.86, Y.87, H.88, E.89, G.91, S.92, D.95, K.142, N.143, L.145, A.155, D.156 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.16, A:V.16, A:V.24, A:A.35, A:Y.87, A:L.145, A:L.145 Hydrogen bonds: A:H.88 Water bridges: A:K.37, A:D.156

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: H.88, E.89, K.147, K.148, N.149 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.146, A:K.148 Water bridges: A:E.89, A:N.149 Salt bridges: A:H.88 SO4.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SO4.7: 5 residues within 4Å: Chain A: E.187, T.192, I.193, Q.194, P.284 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.192 Water bridges: A:Q.194

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 5 residues within 4Å: Chain A: G.179, T.180, K.181, R.182 Ligands: EDO.4 No protein-ligand interaction detected (PLIP)

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

EDO.4: 5 residues within 4Å: Chain A: R.182, N.239, D.240, P.241 Ligands: DMS.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.182, A:R.182, A:D.240 EDO.5: 5 residues within 4Å: Chain A: R.256, Y.281, Q.282, N.283, A.286 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.282, A:N.283 Water bridges: A:R.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smil, D. et al., Leveraging an Open Science Drug Discovery Model to Develop CNS-Penetrant ALK2 Inhibitors for the Treatment of Diffuse Intrinsic Pontine Glioma. J.Med.Chem. (2020)

Release Date

2019-10-16

Peptides

Activin receptor type I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Activin receptor type I

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