SMTL ID : 6gzm.1

Crystal Structure of Human CKIdelta with A86

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 4 residues within 4Å: Chain A: R.127, K.154, K.171, E.189 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:E.189, A:E.189 Water bridges: A:R.127, A:K.171 Salt bridges: A:R.127, A:K.154, A:K.154, A:K.154, A:K.171, A:K.171

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: G.215, K.217, K.224 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.217, A:K.217, A:K.224, A:K.224 GOL.3: 5 residues within 4Å: Chain A: T.176, A.177, R.178, Q.214, I.228 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.177, A:R.178 Water bridges: A:T.176, A:R.178, A:Q.214, A:Y.225 GOL.5: 3 residues within 4Å: Chain B: R.127, K.154, K.171 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.127, B:R.127, B:K.171 Water bridges: B:L.152, B:A.153 GOL.6: 7 residues within 4Å: Chain A: L.25 Chain B: R.10, G.12, N.13, L.25, G.26 Ligands: LCI.4 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.10, B:R.10, B:N.13, B:N.13, B:L.25

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

LCI.4: 16 residues within 4Å: Chain A: G.16, S.17, G.18, I.23, A.36, M.82, E.83, L.84, L.85, G.86, D.91, L.135, I.148 Chain B: E.2, R.10 Ligands: GOL.6 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.135, A:I.148 Hydrogen bonds: A:L.85, A:L.85, B:E.2, B:E.2 LCI.7: 14 residues within 4Å: Chain B: I.15, G.16, S.17, G.18, I.23, A.36, M.82, E.83, L.84, L.85, G.86, D.91, L.135, I.148 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.15, B:I.23, B:L.135 Hydrogen bonds: B:L.85, B:L.85 Water bridges: B:Y.56, B:D.91, B:D.91, A:R.10

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 delta: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Casein kinase I isoform delta

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