SMTL ID : 4nst.1 (3 other biounits)

Crystal structure of human Cdk12/Cyclin K in complex with ADP-aluminum fluoride

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 21 residues within 4Å: Chain A: I.21, E.23, G.24, T.25, V.29, A.42, K.44, F.101, E.102, Y.103, M.104, D.107, S.151, N.152, L.154, D.165, H.328, E.329 Ligands: AF3.2, MG.3, MG.4 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:T.25, A:E.102, A:M.104, A:D.107, A:D.107, A:D.165, A:D.165, A:E.329, A:E.329 Water bridges: A:K.44, A:E.329, A:E.329 Salt bridges: A:K.44, A:K.44

1 x AF3: ALUMINUM FLUORIDE(Non-covalent)

AF3.2: 7 residues within 4Å: Chain A: D.147, K.149, N.152, D.165 Ligands: ADP.1, MG.3, MG.4 No protein-ligand interaction detected (PLIP)

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: N.152, D.165 Ligands: ADP.1, AF3.2, MG.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.165, H2O.3 MG.4: 5 residues within 4Å: Chain A: T.25, D.165 Ligands: ADP.1, AF3.2, MG.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.165, A:D.165, H2O.1 MG.5: 2 residues within 4Å: Chain A: H.287, S.305 No protein-ligand interaction detected (PLIP)

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

EDO.6: 6 residues within 4Å: Chain A: M.109, K.149, C.150, S.151, W.188, Y.189 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.150, A:S.151, A:S.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bosken, C.A. et al., The structure and substrate specificity of human Cdk12/Cyclin K. Nat Commun (2014)

Release Date

2014-03-26

Peptides

Cyclin-dependent kinase 12: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyclin-dependent kinase 12

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