4KBA

CK1d in complex with 9-[3-(4-fluorophenyl)-1-methyl-1H-pyrazol-4-yl]-2,3,4,5-tetrahydropyrido[2,3-f][1,4]oxazepine inhibitor

Structural Biology Knowledgebase: 4KBA SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KBA

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 156312.20

Macromolecule Entities
Molecule Chains Length Organism Details
Casein kinase I isoform delta A, B, C, D 331 Homo sapiens EC#: 2.7.11.1 IUBMB
Gene Name(s): CSNK1D Gene View HCKID
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1QM
Query on 1QM

A, B, C, D 9-[3-(4-fluorophenyl)-1-methyl-1H-pyrazol- 4-yl]-2,3,4,5-tetrahydropyrido[2,3-f][1,4]oxazepine
C18 H17 F N4 O
RDUXJEGWTNOYDA-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1QM IC50: 6 - 42 nM (95 - 100) BindingDB

IC50: 654 nM  BindingMOAD
IC50: 6.0 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.208
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.69 α = 108.00
b = 83.96 β = 105.71
c = 89.29 γ = 93.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-04-23
  • Released Date: 2013-09-18
  • Deposition author(s): Liu, S.

Revision History

  • 2013-09-25
    Type: Citation | Details: Citation update