1LV8

Crystal structure of calf spleen purine nucleoside phosphorylase in a new space group with full trimer in the asymmetric unit

Structural Biology Knowledgebase: 1LV8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.189

Literature

Macromolecules
Sequence Display for 1LV8

Classification: TRANSFERASE

Total Structure Weight: 194802.44

Macromolecule Entities
Molecule Chains Length Organism Details
PURINE NUCLEOSIDE PHOSPHORYLASE A, B, C..., D, E, FA, B, C, D, E, F 289 Bos taurus EC#: 2.4.2.1 IUBMB
Mutation: E144Q
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
9PP
Query on 9PP

A, B, C, D, E, F 2,6-DIAMINO-(S)-9-[2-(PHOSPHONOMETHOXY)PROPYL]PURINE
C9 H13 N6 O4 P
LWEKFDHXJHJYGB-YFKPBYRVSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C, D, E, F CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
9PP N/A in BindingDB
Kd: 3500 nM  BindingMOAD
Kd: 3500 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.189
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 79.14 α = 90.00
b = 134.24 β = 90.00
c = 177.15 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-05-27
  • Released Date: 2003-09-02
  • Deposition author(s): Bzowska, A., Koellner, G., Wielgus-Kutrowska, B., Stroh, A., Raszewski, G., Holy, A., Steiner, T., Frank, J.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4