4KDS image
Deposition Date 2013-04-25
Release Date 2013-05-22
Last Version Date 2024-02-28
Entry Detail
PDB ID:
4KDS
Title:
Crystal structure of latent rainbow trout plasminogen activator inhibitor 1 (PAI-1)
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.67 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Plasminogen activator inhibitor 1
Gene (Uniprot):serpine1
Chain IDs:A
Chain Length:386
Number of Molecules:1
Biological Source:Oncorhynchus mykiss
Ligand Molecules
Primary Citation
Protein conformational change delayed by steric hindrance from an N-linked glycan.
J.Mol.Biol. 425 2867 2877 (2013)
PMID: 23702291 DOI: 10.1016/j.jmb.2013.05.007

Abstact

Very few studies have attributed a direct, active, functional role to N-linked glycans. We describe here an N-linked glycan with a unique role for maintaining the active conformation of a protein of the serpin family. The distinguishing feature of serpins is the "stressed-to-relaxed" transition, in which the reactive center loop inserts as a β-strand into the central β-sheet A. This transition forms the basis for the conversion of serpins to the inactive latent state. We demonstrate that plasminogen activator inhibitor-1 (PAI-1) from zebrafish converts to the latent state about 5-fold slower than human PAI-1. In contrast to human PAI-1, fish PAI-1 carries a single N-linked glycan at Asn185 in the gate region through which the reactive center loop passes during latency transition. While the latency transition of human PAI-1 is unaffected by deglycosylation, deglycosylated zebrafish PAI-1 (zfPAI-1) goes latent about 50-fold faster than the glycosylated zfPAI-1 and about 25-fold faster than non-glycosylated human PAI-1. X-ray crystal structure analysis of glycosylated fish PAI-1 confirmed the presence of an N-linked glycan in the gate region and a lack of glycan-induced structural changes. Thus, latency transition of zfPAI-1 is delayed by steric hindrance from the glycan in the gate region. Our findings reveal a previously unknown mechanism for inhibition of protein conformational changes by steric hindrance from N-linked glycans.

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