SMTL ID : 6w9e.1

Crystal Structure of Human CDK9/cyclinT1 in complex with MC180295

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

2 x TO7: (4-amino-2-{[(1S,2S,4R)-bicyclo[2.2.1]heptan-2-yl]amino}-1,3-thiazol-5-yl)(2-nitrophenyl)methanone(Non-covalent)

TO7.1: 19 residues within 4Å: Chain A: F.30, V.33, A.46, K.48, V.79, F.103, D.104, F.105, C.106, E.107, H.108, D.109, N.154, L.156, A.166, D.167 Ligands: TO7.2, TOJ.3, TOJ.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.30, A:V.33, A:V.33, A:K.48, A:K.48, A:F.103, A:F.103, A:F.105, A:D.109 Hydrogen bonds: A:D.104, A:C.106, A:C.106, A:D.167 TO7.2: 20 residues within 4Å: Chain A: I.25, F.30, V.33, A.46, K.48, V.79, F.103, D.104, F.105, C.106, E.107, H.108, D.109, N.154, L.156, A.166, D.167 Ligands: TO7.1, TOJ.3, TOJ.4 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.30, A:F.30, A:F.30, A:F.105, A:D.109, A:A.166, A:D.167 Hydrogen bonds: A:D.104, A:C.106, A:C.106

2 x TOJ: (4-amino-2-{[(1R,2R,4S)-bicyclo[2.2.1]heptan-2-yl]amino}-1,3-thiazol-5-yl)(2-nitrophenyl)methanone(Non-covalent)

TOJ.3: 19 residues within 4Å: Chain A: I.25, F.30, V.33, A.46, K.48, V.79, F.103, D.104, F.105, C.106, E.107, D.109, N.154, L.156, A.166, D.167 Ligands: TO7.1, TO7.2, TOJ.4 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.25, A:F.30, A:F.30, A:F.30, A:D.109, A:A.166, A:D.167 Hydrogen bonds: A:D.104, A:C.106, A:C.106 TOJ.4: 20 residues within 4Å: Chain A: I.25, F.30, V.33, A.46, K.48, V.79, F.103, D.104, F.105, C.106, E.107, H.108, D.109, N.154, L.156, A.166, D.167 Ligands: TO7.1, TO7.2, TOJ.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.30, A:V.33, A:V.33, A:K.48, A:K.48, A:F.103, A:F.103, A:D.109 Hydrogen bonds: A:D.104, A:C.106, A:C.106, A:D.167

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 3 residues within 4Å: Chain B: K.99, K.100, H.103 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.100 Salt bridges: B:K.99, B:K.100, B:H.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kirubakaran, P. et al., Comparative Modeling of CDK9 Inhibitors to Explore Selectivity and Structure-Activity Relationships. To Be Published

Release Date

2021-09-01

Peptides

Cyclin-dependent kinase 9: A
Cyclin-T1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclin-dependent kinase 9

Cyclin-T1

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