1PXD image
Deposition Date 2003-07-03
Release Date 2004-02-03
Last Version Date 2023-08-16
Entry Detail
PDB ID:
1PXD
Title:
Crystal structure of the complex of jacalin with meso-tetrasulphonatophenylporphyrin.
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.23
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
I 2 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Agglutinin alpha chain
Chain IDs:A
Chain Length:133
Number of Molecules:1
Biological Source:Artocarpus integer
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Agglutinin beta-3 chain
Chain IDs:B
Chain Length:20
Number of Molecules:1
Biological Source:Artocarpus integer
Ligand Molecules
Primary Citation
Porphyrin binding to jacalin is facilitated by the inherent plasticity of the carbohydrate-binding site: novel mode of lectin-ligand interaction.
Acta Crystallogr.,Sect.D 60 281 288 (2004)
PMID: 14747704 DOI: 10.1107/S0907444903026684

Abstact

The crystal structure of the complex of meso-tetrasulfonatophenylporphyrin (H(2)TPPS) with jack fruit (Artocarpus integriflora) agglutinin (jacalin) has been determined at 1.8 A resolution. A porphyrin pair is sandwiched between two symmetry-related jacalin monomers in the crystal, leading to a cross-linking network of protein molecules. Apart from the stacking interactions, H(2)TPPS also forms hydrogen bonds, some involving water bridges, with jacalin at the carbohydrate-binding site. The residues that are involved in rendering galactopyranoside specificity to jacalin undergo conformational adjustments in order to accommodate the H(2)TPPS molecule. The water molecules at the carbohydrate-binding site of jacalin cement the jacalin-porphyrin interactions, optimizing their complementarity. Interactions of porphyrin with jacalin are relatively weak compared with those observed between galactopyranoside and jacalin, perhaps because the former largely involves water-mediated hydrogen bonds. While H(2)TPPS binds to jacalin at the carbohydrate-binding site as in the case of ConA, its mode of interaction with jacalin is very different. H(2)TPPS does not enter the carbohydrate-binding cavity of jacalin. Instead, it sits over the binding site. While the porphyrin binding is mediated by replicating the hydrogen-bonding network of mannopyranoside through the sulfonate atoms in the case of ConA, the plasticity associated with the carbohydrate-binding site accommodates the pluripotent porphyrin molecule in the case of jacalin through an entirely different set of interactions.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
Feedback Form
Name
Email
Institute
Feedback