1RT9

Structure of human purine nucleoside phosphorylase in complex with Immucillin-H and sulfate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.251

Literature

Macromolecules
Sequence Display for 1RT9

Classification: TRANSFERASE

Total Structure Weight: 32739.32

Macromolecule Entities
Molecule Chains Length Organism Details
Purine nucleoside phosphorylase A 289 Homo sapiens EC#: 2.4.2.1 IUBMB
Gene Name(s): PNP Gene View NP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 1,4-DIDEOXY-4-AZA-1-(S)-(9-DEAZAHYPOXANTHIN- 9-YL)-D-RIBITOL
C11 H14 N4 O4
IWKXDMQDITUYRK-KUBHLMPHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
IMH N/A in BindingDB
N/A in BindingMoad
Ki: 0.056 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.281
  • R-Value Work: 0.251
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 142.08 α = 90.00
b = 142.08 β = 90.00
c = 166.96 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-12-10
  • Released Date: 2005-02-22
  • Deposition author(s): Shi, W., Lewandowicz, A., Tyler, P.C., Furneaux, R.H., Almo, S.C., Schramm, V.L.

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Derived calculations, Version format compliance