4F6S

Crystal structure of human CDK8/CYCC in complex with compound 7 (1-[3-tert-butyl-1-(4-methylphenyl)-1H-pyrazol-5-yl]urea)

Structural Biology Knowledgebase: 4F6S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.203

Literature

Macromolecules
Sequence Display for 4F6S

Classification: TRANSFERASE / TRANSCRIPTION / INHIBITOR

Total Structure Weight: 81544.42

Macromolecule Entities
Molecule Chains Length Organism Details
Cyclin-dependent kinase 8 A 405 Homo sapiens EC#: 2.7.11.22 IUBMB 2.7.11.23 IUBMB
Fragment: UNP residues 1-403
Gene Name(s): CDK8 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cyclin-C B 287 Homo sapiens Gene Name(s): CCNC Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0SQ
Query on 0SQ

A 1-[3-tert-butyl-1-(4-methylphenyl)-1H-pyrazol- 5-yl]urea
C15 H20 N4 O
PXDGOKVFTJDAPC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FMT
Query on FMT

A, B FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.203
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 71.04 α = 90.00
b = 71.39 β = 90.00
c = 171.72 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-15
  • Released Date: 2013-05-01
  • Deposition author(s): Schneider, E.V., Boettcher, J., Huber, R., Maskos, K.

Revision History

  • 2015-04-01
    Type: Citation | Details: Citation update