4EL9

Structure of N-terminal kinase domain of RSK2 with afzelin

Structural Biology Knowledgebase: 4EL9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.200

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EL9

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 35503.51

Macromolecule Entities
Molecule Chains Length Organism Details
Ribosomal protein S6 kinase alpha-3 A 305 Mus musculus EC#: 2.7.11.1 IUBMB
Fragment: N-terminal protein kinase 1 domain (UNP residues 45-346)
Gene Name(s): Rps6ka3 Mapkapk1b Rps6ka-rs1 Rsk2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 5,7-dihydroxy-2-(4-hydroxyphenyl)-4-oxo-4H- chromen-3-yl 6-deoxy-alpha-L-mannopyranoside
afzelin, kaempherol 3-O-alpha-rhamnoside (Synonym)
C21 H20 O10
SOSLMHZOJATCCP-AEIZVZFYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AFE N/A in BindingDB
N/A in BindingMoad
IC50: 4370 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.200
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 99.12 α = 90.00
b = 40.86 β = 114.64
c = 83.87 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-04-10
  • Released Date: 2012-09-05
  • Deposition author(s): Utepbergenov, D., Derewenda, U., Derewenda, Z.S.

Revision History

No revisions since initial release