SMTL ID : 8b54.1 (1 other biounit)

CDK2/cyclin A2 in complex with pyrazolo[4,3-d]pyrimidine inhibitor LGR6768

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x P2V: ~{N}-[(2-phenylphenyl)methyl]-5-piperidin-4-ylsulfanyl-3-propan-2-yl-2~{H}-pyrazolo[4,3-d]pyrimidin-7-amine(Non-covalent)

P2V.1: 17 residues within 4Å: Chain A: E.9, I.11, E.13, V.19, A.32, V.65, F.81, E.82, F.83, L.84, H.85, Q.86, D.87, K.90, Q.132, L.135, A.145 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.11, A:I.11, A:I.11, A:A.32, A:V.65, A:F.81, A:F.81, A:F.83, A:D.87, A:K.90, A:L.135, A:A.145 Hydrogen bonds: A:E.82, A:L.84, A:L.84 Water bridges: A:D.87

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: F.5, N.24, E.29, D.69, V.80 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.24, A:E.29, A:D.69 Water bridges: A:E.29, A:E.29 GOL.4: 3 residues within 4Å: Chain B: I.39, W.43, Q.80 No protein-ligand interaction detected (PLIP)

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

EDO.3: 3 residues within 4Å: Chain A: K.57, L.67, V.70 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kovalova, M. et al., Characterization of new highly selective pyrazolo[4,3-d]pyrimidine inhibitor of CDK7. Biomed Pharmacother (2023)

Release Date

2023-03-29

Peptides

Cyclin-dependent kinase 2: A
Cyclin-A2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclin-dependent kinase 2

Cyclin-A2

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