4KCX

BRDT in complex with Dinaciclib

Structural Biology Knowledgebase: 4KCX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.209

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KCX

Classification: Cell Cycle / Inhibitor

Total Structure Weight: 28726.99

Macromolecule Entities
Molecule Chains Length Organism Details
Bromodomain testis-specific protein A, B 117 Homo sapiens Fragment: First Bromodomain, UNP residues 21-137
Gene Name(s): BRDT Gene View

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

A, B 3-[({3-ethyl-5-[(2S)-2-(2-hydroxyethyl)piperidin- 1-yl]pyrazolo[1,5-a]pyrimidin-7-yl}amino)methyl]- 1-hydroxypyridinium
DINACICLIB (Synonym)
C21 H29 N6 O2
WBUFFOKXERTKGU-SFHVURJKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1QK N/A in BindingDB
Kd: 37000 nM  BindingMOAD
Kd: 37000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.209
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 64.72 α = 90.00
b = 29.95 β = 94.12
c = 71.38 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-04-24
  • Released Date: 2013-09-18
  • Deposition author(s): Martin, M.P., Schonbrunn, E.

Revision History

  • 2013-12-25
    Type: Citation | Details: Citation update