3PMH image
Entry Detail
PDB ID:
3PMH
Title:
Mechanism of Sulfotyrosine-Mediated Glycoprotein Ib Interaction with Two Distinct alpha-Thrombin Sites
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2010-11-16
Release Date:
2011-06-01
Method Details:
Experimental Method:
Resolution:
3.20 Å
R-Value Free:
0.26
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 43 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:THROMBIN ALPHA-CHAIN
Chain IDs:A
Chain Length:36
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:THROMBIN BETA-CHAIN
Chain IDs:B
Chain Length:259
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Platelet glycoprotein Ib alpha chain
Mutations:C65A
Chain IDs:C (auth: G)
Chain Length:290
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN C ASN GLYCOSYLATION SITE
TYS C TYR O-SULFO-L-TYROSINE
Peptide-like Molecules
PRD_000021
Primary Citation
Binding of alpha-thrombin to surface-anchored platelet glycoprotein Ib(alpha) sulfotyrosines through a two-site mechanism involving exosite I.
Proc.Natl.Acad.Sci.USA 108 8628 8633 (2011)
PMID: 21555542 DOI: 10.1073/pnas.1017042108

Abstact

The involvement of exosite I in α-thrombin (FIIa) binding to platelet glycoprotein Ibα (GPIbα), which could influence interactions with other substrates, remains undefined. To address the problem, we generated the GPIbα amino terminal domain (GPIbα-N) fully sulfated on three tyrosine residues and solved the structure of its complex with FIIa. We found that sulfotyrosine (Tys) 278 enhances the interaction mainly by establishing contacts with exosite I. We then evaluated how substituting tyrosine with phenylalanine, which cannot be sulfated, affects FIIa binding to soluble or surface-immobilized GPIbα-N. Mutating Tyr(276), which mostly contacts exosite II residues, markedly reduced FIIa interaction with both soluble and immobilized GPIbα-N; mutating Tyr(278) or Tyr(279), which mostly contact exosite I residues, reduced FIIa complexing in solution by 0-20% but affinity for immobilized GPIbα-N 2 to 6-fold, respectively. Moreover, three exosite I ligands--aptamer HD1, hirugen, and lepirudin--did not interfere with soluble FIIa complexing to GPIbα-N, excluding that their binding caused allosteric effects influencing the interaction; nonetheless, all impaired FIIa binding to immobilized GPIbα-N and platelet GPIb nearly as much as aptamer HD22 and heparin, both exosite II ligands. Bound HD1 and hirugen alter Trp(148) orientation in a loop near exosite I preventing contacts with the sulfate oxygen atoms of Tys(279). These results support a mechanism in which binding occurs when the two exosites of one FIIa molecule independently interact with two immobilized GPIbα molecules. Through exosite engagement, GPIbα may influence FIIa-dependent processes relevant to hemostasis and thrombosis.

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