4F9C

Human CDC7 kinase in complex with DBF4 and XL413

Structural Biology Knowledgebase: 4F9C SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.08 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4F9C

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 57912.80

Macromolecule Entities
Molecule Chains Length Organism Details
Cell division cycle 7-related protein kinase A 361 Homo sapiens EC#: 2.7.11.1 IUBMB
Gene Name(s): CDC7 Gene View CDC7L1
Protein DBF4 homolog A B 144 Homo sapiens Gene Name(s): DBF4 Gene View ASK DBF4A ZDBF1

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

A 8-chloro-2-[(2S)-pyrrolidin-2-yl][1]benzofuro[3,2- d]pyrimidin-4(3H)-one
C14 H12 Cl N3 O2
JJWLXRKVUJDJKG-VIFPVBQESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.08 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.204
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 61.27 α = 90.00
b = 61.27 β = 90.00
c = 238.94 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-18
  • Released Date: 2012-10-31
  • Deposition author(s): Hughes, S., Cherepanov, P.

Revision History

  • 2012-12-12
    Type: Citation | Details: Citation update