1JN2

Crystal Structure of meso-tetrasulphonatophenyl porphyrin complexed with Concanavalin A

Structural Biology Knowledgebase: 1JN2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 1JN2

Classification: SUGAR BINDING PROTEIN

Total Structure Weight: 26656.60

Macromolecule Entities
Molecule Chains Length Organism Details
Concanavalin A P 237 Canavalia ensiformis Mutation: S118N, E151D, R155E
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

P 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)
MN
Query on MN

P MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

P CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
SFP N/A in BindingDB
Ka: 12200 M-1  BindingMOAD
Kd: 82000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.232
  • R-Value Work: 0.195
  • Space Group: F 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 106.00 α = 90.00
b = 117.30 β = 90.00
c = 126.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-22
  • Released Date: 2003-07-01
  • Deposition author(s): Goel, M., Jain, D., Kaur, K.J., Kenoth, R., Maiya, B.G., Swamy, M.J., Salunke, D.M.

Revision History

  • 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