2F2C

X-ray structure of human CDK6-Vcyclinwith the inhibitor aminopurvalanol

Structural Biology Knowledgebase: 2F2C SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.301
  • R-Value Work: 0.238

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2F2C

Classification: CELL CYCLE / TRANSFERASE

Total Structure Weight: 64310.30

Macromolecule Entities
Molecule Chains Length Organism Details
Cyclin homolog A 254 Saimiriine herpesvirus 2 Gene Name(s): 72 ECLF2
Cell division protein kinase 6 B 308 Homo sapiens EC#: 2.7.11.22 IUBMB
Fragment: fragment 1-308
Gene Name(s): CDK6 Gene View CDKN6

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AP9
Query on AP9

B (2S)-2-({6-[(3-AMINO-5-CHLOROPHENYL)AMINO]- 9-ISOPROPYL-9H-PURIN-2-YL}AMINO)-3-METHYLBUTAN- 1-OL
AMINOPURVALANOL (Synonym)
C19 H26 Cl N7 O
RAMROQQYRRQPDL-OAHLLOKOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

B DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AP9 N/A in BindingDB
N/A in BindingMoad
IC50: 450 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.301
  • R-Value Work: 0.238
  • Space Group: P 65 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.52 α = 90.00
b = 71.52 β = 90.00
c = 449.30 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-11-16
  • Released Date: 2006-06-13
  • Deposition author(s): Schulze-Gahmen, U, Lu, H.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor