SMTL ID : 8fp5.1

CDK2 liganded with ATP and Mg2+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: T.137, E.138 3 PLIP interactions: 3 interactions with chain A Water bridges: A:H.84, A:H.84, A:T.137

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 24 residues within 4Å: Chain A: I.10, G.11, E.12, G.13, T.14, Y.15, G.16, V.18, A.31, K.33, V.64, F.80, E.81, F.82, L.83, D.86, K.89, D.127, K.129, Q.131, N.132, L.134, D.145 Ligands: MG.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.14, A:Y.15, A:E.81, A:L.83, A:D.86, A:K.89, A:D.127, A:Q.131, A:Q.131, A:N.132 Water bridges: A:G.16, A:K.33, A:D.86, A:D.86 Salt bridges: A:K.33, A:K.33, A:K.129, A:K.129

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: K.33, N.132, D.145 Ligands: ATP.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.145, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Faber, E.B. et al., Development of allosteric and selective CDK2 inhibitors for contraception with negative cooperativity to cyclin binding. Nat Commun (2023)

Release Date

2023-05-31

Peptides

Cyclin-dependent kinase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyclin-dependent kinase 2

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