Summary
PDB 2ZPX deposited: 2008-07-29 modified: 2009-08-18
Title TNF Receptor Subtype One-selective TNF Mutant with Antagonistic Activity; R1antTNF-T8
Authors Abe, Y., Kamada, H., Mukai, Y., Nakagawa, S., Nakamura, T., Nomura, T., Ohta, T., Shibata, H., Taniai, M., Tsunoda, S., Tsutsumi, Y., Yamagata, Y., Yoshioka, Y.
Method X-RAY DIFFRACTION
Structure factors resolution 2.83 rfactor 0.268 rfree 0.309
DPI 1.38 theoretical min: 0.59
Citations

Tumour necrosis factor (TNF) is an important cytokine that induces an inflammatory response predominantly through the TNF receptor-1 (TNFR1). A crucial strategy for the treatment of many autoimmune diseases, therefore, is to block the binding of TNF to TNFR1. We previously identified a TNFR1-selective antagonistic mutant TNF (R1antTNF) from a phage library containing six randomized amino acid residues at the receptor-binding site (amino acids 84-89). Two R1antTNFs, R1antTNF-T2 (A84S, V85T, S86T, Y87H, Q88N and T89Q) and R1antTNF-T8 (A84T, V85P, S86A, Y87I, Q88N and T89R), were successfully isolated from this library. Here, we analysed R1antTNF-T8 using surface plasmon resonance spectroscopy and X-ray crystallography to determine the mechanism underlying the antagonistic activity of R1antTNF. The kinetic association/dissociation parameters of R1antTNF-T8 were higher than those of wild-type TNF, indicating more rapid bond dissociation. X-ray crystallographic analysis suggested that the binding mode of the T89R mutation changed from a hydrophobic to an electrostatic interaction, which may be responsible for the antagonistic behaviour of R1antTNF. Knowledge of these structure-function relationships will facilitate the design of novel TNF inhibitors based on the cytokine structure.

J Biochem. 2009 Aug;146(2):167-72. Epub 2009 Apr 22.

Cross References
Database source Identifier Description
PubMed 19386778
Biomolecule Structure Assembly Serial Assembly Type Conformational State Chains Ligands Atoms
2ZPX/1 2ZPX 1 trimer 0 3 0 2976