3BLR

Crystal Structure of Human CDK9/cyclinT1 in complex with Flavopiridol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.176

Literature

Macromolecules
Sequence Display for 3BLR

Classification: TRANSCRIPTION

Total Structure Weight: 68860.26

Macromolecule Entities
Molecule Chains Length Organism Details
Cell division protein kinase 9 A 331 Homo sapiens EC#: 2.7.11.22 IUBMB 2.7.11.23 IUBMB
Fragment: UNP residues 2-330
Gene Name(s): CDK9 Gene View CDC2L4 TAK
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cyclin-T1 B 260 Homo sapiens Fragment: UNP residues 2-259
Mutation: Q77R, E96G, F241L
Gene Name(s): CCNT1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 2-(2-CHLORO-PHENYL)-5,7-DIHYDROXY-8-(3-HYDROXY- 1-METHYL-PIPERIDIN-4-YL)-4H-BENZOPYRAN-4- ONE
FLAVOPIRIDOL (Synonym)
C21 H20 Cl N O5
BIIVYFLTOXDAOV-YVEFUNNKSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CPB IC50: 20 nM (100) BindingDB
Kd: 6.4 nM (100) BindingDB
Ki: 3 nM (100) BindingDB

N/A in BindingMoad
Kd: 6.4 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TPO
Query on TPO
A L-PEPTIDE LINKING C4 H10 N O6 P THR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.176
  • Space Group: H 3

Unit Cell:

Length (Å) Angle (°)
a = 173.92 α = 90.00
b = 173.92 β = 90.00
c = 97.17 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-12-11
  • Released Date: 2008-07-01
  • Deposition author(s): Baumli, S., Lolli, G., Lowe, E.D., Johnson, L.N.

Revision History

  • 2011-07-13
    Type: Version format compliance