SMTL ID : 6gzd.1

Crystal structure of Human CSNK1A1 with A86

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

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

DMS.1: 4 residues within 4Å: Chain A: R.172, K.199, K.216 Ligands: DMS.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.216 DMS.2: 6 residues within 4Å: Chain A: Y.96, R.172, G.196, L.197, A.198 Ligands: DMS.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.96, A:R.172

3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 4 residues within 4Å: Chain A: P.257, K.276, S.279, T.280 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.276, A:S.279 PGE.4: 4 residues within 4Å: Chain A: V.108, Q.156, R.160, Y.331 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.331 PGE.5: 3 residues within 4Å: Chain A: N.298, R.301, G.302 No protein-ligand interaction detected (PLIP)

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

EDO.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.7: 3 residues within 4Å: Chain A: D.155, S.159, R.315 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.155, A:S.159 EDO.8: 3 residues within 4Å: Chain A: Y.96, I.103, F.169 No protein-ligand interaction detected (PLIP) EDO.9: 1 residues within 4Å: Chain A: R.207 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.207 Water bridges: A:T.166, A:R.202 EDO.10: 3 residues within 4Å: Chain A: G.288, F.289, P.290 No protein-ligand interaction detected (PLIP)

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.11: 3 residues within 4Å: Chain A: Y.299, D.310, Y.313 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.310 PEG.12: 5 residues within 4Å: Chain A: R.202, D.203, Q.208, H.209, I.210 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.200 PEG.13: 2 residues within 4Å: Chain A: T.206, R.207 No protein-ligand interaction detected (PLIP) PEG.14: 3 residues within 4Å: Chain A: Q.105, Y.163, K.167 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.163, A:K.167 Water bridges: A:T.166, A:K.167 PEG.15: 4 residues within 4Å: Chain A: F.48, G.57, Y.69, Y.122 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.122 PEG.16: 6 residues within 4Å: Chain A: D.215, K.216, N.217, H.230, L.231, G.232 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.231

1 x TCE: 3,3',3''-phosphanetriyltripropanoic acid(Non-covalent)

TCE.17: 9 residues within 4Å: Chain A: T.221, A.222, R.223, W.258, Q.259, G.260, L.261, K.269, I.273 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.222, A:R.223, A:L.261 Salt bridges: A:K.269

1 x LCI: [4-[[4-[5-(cyclopropylmethyl)-1-methyl-pyrazol-4-yl]-5-fluoranyl-pyrimidin-2-yl]amino]cyclohexyl]azanium(Non-covalent)

LCI.18: 13 residues within 4Å: Chain A: I.60, G.61, S.62, G.63, I.68, A.81, M.127, D.128, L.129, L.130, G.131, D.136, L.180 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.60, A:I.68, A:L.180 Hydrogen bonds: A:L.130, A:L.130 Water bridges: A:D.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minzel, W. et al., Small Molecules Co-targeting CKI alpha and the Transcriptional Kinases CDK7/9 Control AML in Preclinical Models. Cell (2018)

Release Date

2018-08-29

Peptides

Casein kinase I isoform alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Casein kinase I isoform alpha