1V3Q

Structure of human PNP complexed with DDI

Structural Biology Knowledgebase: 1V3Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1V3Q

Classification: TRANSFERASE

Total Structure Weight: 32578.30

Macromolecule Entities
Molecule Chains Length Organism Details
Purine nucleoside phosphorylase E 288 Homo sapiens EC#: 2.4.2.1 IUBMB
Gene Name(s): PNP Gene View NP

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

E 9-[(2R,5R)-5-(HYDROXYMETHYL)TETRAHYDROFURAN- 2-YL]-1,9-DIHYDRO-6H-PURIN-6-ONE
2',3'-DIDEOXYINOSINE; Didanosine (Synonym)
C10 H12 N4 O3
BXZVVICBKDXVGW-NKWVEPMBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

E SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.306
  • R-Value Work: 0.214
  • Space Group: H 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 141.33 α = 90.00
b = 141.33 β = 90.00
c = 161.45 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-11-04
  • Released Date: 2004-01-20
  • Deposition author(s): Canduri, F., Pereira, J.H., dos Santos, D.M., Silva, R.G., Palma, M.S., Basso, L.A., de Azevedo Jr., W.F., Santos, D.S.

Revision History

  • 2012-07-18
    Type: Non-polymer description | Details: Update synonym of 2DI
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values