1PXD

Crystal structure of the complex of jacalin with meso-tetrasulphonatophenylporphyrin.

Structural Biology Knowledgebase: 1PXD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 1PXD

Classification: Sugar Binding Protein

Total Structure Weight: 18610.91

Macromolecule Entities
Molecule Chains Length Organism Details
Agglutinin alpha chain A 133 Artocarpus integer Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Agglutinin beta-3 chain B 20 Artocarpus integer Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 5,10,15,20-TETRAKIS(4-SULPFONATOPHENYL)-21H,23H- PORPHINE
C44 H34 N4 O12 S4
OVPFWIRROXFHGQ-LWQDQPMZSA-J
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
SFP N/A in BindingDB
Ka: 6500 M-1  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.219
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.07 α = 90.00
b = 101.89 β = 90.00
c = 107.66 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-03
  • Released Date: 2004-02-03
  • Deposition author(s): Goel, M., Anuradha, P., Kaur, K.J., Maiya, B.G., Swamy, M.J., Salunke, D.M.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4