3BBB

Crystal structure of the NM23-H2 transcription factor complex with dinucleotide d(AG)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.175

Literature

Macromolecules
Sequence Display for 3BBB

Classification: TRANSFERASE

Total Structure Weight: 105208.48

Macromolecule Entities
Molecule Chains Length Organism Details
Nucleoside diphosphate kinase B A, B, C..., D, E, FA, B, C, D, E, F 151 Homo sapiens EC#: 2.7.4.6 IUBMB
Gene Name(s): NME2 Gene View NM23B
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B, C, E, F 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
C10 H14 N5 O7 P
LTFMZDNNPPEQNG-KVQBGUIXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DA
Query on DA

C, E 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
C10 H14 N5 O6 P
KHWCHTKSEGGWEX-RRKCRQDMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DA N/A in BindingDB
N/A in BindingMoad
Kd: 100 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.175
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 52.47 α = 90.00
b = 118.22 β = 90.00
c = 128.91 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-11-09
  • Released Date: 2008-09-23
  • Deposition author(s): Weichsel, A., Montfort, W.R.

Revision History

  • 2011-07-13
    Type: Version format compliance