SMTL ID : 6t28.1

Crystal structure of human calmodulin-dependent protein kinase 1D (CAMK1D) bound to compound 19 (CS640)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: E.17, S.90, P.91, N.92, H.93 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.90, A:N.92, A:N.92, A:H.93 Water bridges: A:S.90, A:Y.95 Salt bridges: A:H.93 SO4.5: 8 residues within 4Å: Chain A: Y.133, H.136, R.137, K.200, C.204, T.269, C.270, E.271 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:C.270, A:E.271 Water bridges: A:E.271 Salt bridges: A:H.136, A:R.137, A:K.200 SO4.6: 3 residues within 4Å: Chain A: Y.244, Q.296, K.299 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.244, A:Y.244, A:Q.296 Salt bridges: A:K.299

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

EDO.2: 6 residues within 4Å: Chain A: L.73, I.76, V.82, A.83, L.84, Y.134 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.84, A:Y.134, A:Y.134 EDO.3: 3 residues within 4Å: Chain A: P.219, Y.222, N.300 No protein-ligand interaction detected (PLIP) EDO.4: 4 residues within 4Å: Chain A: D.130, Y.133, A.274, R.275 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.130, A:D.130, A:R.275, A:R.275

1 x M92: 2-[(3~{S})-3-azanylpiperidin-1-yl]-4-[[2,6-di(propan-2-yl)pyridin-4-yl]amino]pyrimidine-5-carboxamide(Non-covalent)

M92.7: 15 residues within 4Å: Chain A: E.27, L.29, V.37, A.50, V.82, Q.99, L.100, V.101, S.102, E.105, E.148, N.149, L.151, S.164, D.165 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.151 Hydrogen bonds: A:Q.99, A:V.101, A:V.101, A:D.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fromont, C. et al., Discovery of Highly Selective Inhibitors of Calmodulin-Dependent Kinases That Restore Insulin Sensitivity in the Diet-Induced Obesityin VivoMouse Model. J.Med.Chem. (2020)

Release Date

2019-11-13

Peptides

Calcium/calmodulin-dependent protein kinase type 1D: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Calcium/calmodulin-dependent protein kinase type 1D

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