SMTL ID : 6y0a.1

CRYSTAL STRUCTURE OF CDK8-CycC IN COMPLEX WITH BI00690300

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

hetero-1-1-mer

Ligands

1 x JRE: 6-[5-chloranyl-4-[(1~{S})-1-oxidanylethyl]pyridin-3-yl]-3,4-dihydro-2~{H}-1,8-naphthyridine-1-carboxamide(Non-covalent)

JRE.1: 15 residues within 4Å: Chain A: V.30, G.31, V.38, A.53, I.82, F.100, D.101, Y.102, A.103, D.106, A.158, L.161, A.175, D.176, R.359 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.38, A:L.161 Hydrogen bonds: A:V.30, A:A.103 Water bridges: A:D.176 pi-Cation interactions: A:R.359

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

EDO.2: 5 residues within 4Å: Chain A: R.74, Q.85, K.86, V.87 Chain B: D.150 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.87, A:V.87

3 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 7 residues within 4Å: Chain B: A.3, M.4, A.5, I.154, V.155, Y.156, R.160 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.160 FMT.4: 4 residues within 4Å: Chain B: Y.40, Q.44, F.72, Y.76 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.44 Water bridges: B:K.73 FMT.5: 5 residues within 4Å: Chain A: F.8 Chain B: K.30, Y.79, S.80, S.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.30, B:S.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boettcher, J., Human Cyclin-Dependent Kinase8/Cyclinc In Complex With Ligand 30180596. To Be Published

Release Date

2021-02-17

Peptides

Cyclin-dependent kinase 8: A
Cyclin-C: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclin-dependent kinase 8

Cyclin-C

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