2AXI

HDM2 in complex with a beta-hairpin

Structural Biology Knowledgebase: 2AXI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Observed: 0.149

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2AXI

Classification: LIGASE / LIGASE INHIBITOR

Total Structure Weight: 15165.67

Macromolecule Entities
Molecule Chains Length Organism Details
Ubiquitin-protein ligase E3 Mdm2 A 115 Homo sapiens EC#: 6.3.2 IUBMB
Fragment: HDM2
Gene Name(s): MDM2 Gene View
cyclic 8-mer peptide B 10 synthetic

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

A 3[N-MORPHOLINO]PROPANE SULFONIC ACID
C7 H15 N O4 S
DVLFYONBTKHTER-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000326 (PHE,DPR,6CW,TRP,ASP,GLU,PRO,LEU) B cyclo(L-alpha-aspartyl-L-tryptophyl-L-alpha-glutamyl-L-phenylalanyl-D-prolyl-L-prolyl-L-phenylalanyl-L-alpha-glutamyl-6-chloro-L-tryptophyl-L-leucyl) Peptide-like /
Inhibitor
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Observed: 0.149
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 45.18 α = 90.00
b = 77.75 β = 90.00
c = 61.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-09-05
  • Released Date: 2006-03-21
  • Deposition author(s): Mittl, P.R.E., Fasan, R., Robinson, J., Gruetter, M.G.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords