2GMK

Crystal structure of onconase double mutant with spontaneously-assembled (AMP) 4 stack


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.165

Literature

Macromolecules
Sequence Display for 2GMK

Classification: HYDROLASE

Total Structure Weight: 13189.50

Macromolecule Entities
Molecule Chains Length Organism Details
P-30 protein A 104 Rana pipiens EC#: 3.1.27 IUBMB
Mutation: Q1X, T89N, E91A
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AMP N/A in BindingDB
Ki: 590000 nM  BindingMOAD
Ki: 590000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
PCA
Query on PCA
A L-PEPTIDE LINKING C5 H7 N O3 GLU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.165
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 28.99 α = 90.00
b = 52.11 β = 90.00
c = 66.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-04-06
  • Released Date: 2006-04-25
  • Deposition author(s): Bae, E., Lee, J.E., Raines, R.T., Wesenberg, G.E., Phillips Jr., G.N., Bitto, E., Bingman, C.A., Center for Eukaryotic Structural Genomics (CESG)

Revision History

  • 2008-01-15
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance