SMTL ID : 3ti1.1

CDK2 in complex with SUNITINIB

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

monomer

Ligands

1 x B49: N-[2-(diethylamino)ethyl]-5-[(Z)-(5-fluoro-2-oxo-1,2-dihydro-3H-indol-3-ylidene)methyl]-2,4-dimethyl-1H-pyrrole-3-carbo xamide(Non-covalent)

B49.1: 14 residues within 4Å: Chain A: I.10, A.31, V.64, F.80, E.81, F.82, L.83, H.84, Q.85, D.86, K.88, K.89, L.134, D.145 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.10, A:A.31, A:V.64, A:F.80, A:F.80, A:F.82, A:K.88, A:L.134 Hydrogen bonds: A:I.10, A:E.81, A:L.83, A:L.83, A:D.86, A:D.86 Salt bridges: A:D.86

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

EDO.2: 5 residues within 4Å: Chain A: L.83, H.84, N.136, T.137, L.298 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.82, A:H.84, A:T.137, A:T.137 EDO.3: 6 residues within 4Å: Chain A: A.116, H.119, S.120, S.276, A.277, K.278 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.120, A:S.276, A:A.277, A:K.278 EDO.4: 5 residues within 4Å: Chain A: N.272, R.274, I.275, S.276, A.279 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.272, A:S.276, A:S.276 Water bridges: A:S.276 EDO.5: 4 residues within 4Å: Chain A: M.91, D.92, E.195, R.199 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.92, A:E.195, A:E.195 Water bridges: A:K.88 EDO.6: 3 residues within 4Å: Chain A: C.177, K.178, Y.179 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.178 EDO.7: 5 residues within 4Å: Chain A: F.248, E.257, R.260, S.261, S.264 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.257, A:S.264, A:S.264 EDO.8: 3 residues within 4Å: Chain A: V.289, T.290, K.291 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.290 EDO.9: 6 residues within 4Å: Chain A: L.101, P.102, K.105, D.288, V.289, T.290 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.290, A:T.290 Water bridges: A:T.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martin, M.P. et al., A Novel Approach to the Discovery of Small-Molecule Ligands of CDK2. Chembiochem (2012)

Release Date

2012-08-22

Peptides

Cyclin-dependent kinase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyclin-dependent kinase 2

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