3UTU image
Deposition Date 2011-11-26
Release Date 2012-08-29
Last Version Date 2024-11-20
Entry Detail
PDB ID:
3UTU
Title:
High affinity inhibitor of human thrombin
Biological Source:
Source Organism:
Hirudo medicinalis (Taxon ID: 6421)
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
1.55 Å
R-Value Free:
0.27
R-Value Work:
0.21
R-Value Observed:
0.24
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Thrombin heavy chain
Gene (Uniprot):F2
Chain IDs:B (auth: H)
Chain Length:259
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Hirudin variant-1
Chain IDs:C (auth: I)
Chain Length:11
Number of Molecules:1
Biological Source:Hirudo medicinalis
Polymer Type:polypeptide(L)
Molecule:Thrombin light chain
Gene (Uniprot):F2
Chain IDs:A (auth: L)
Chain Length:36
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
TYS C TYR O-SULFO-L-TYROSINE
Primary Citation
Beyond heparinization: design of highly potent thrombin inhibitors suitable for surface coupling
Chemmedchem 7 1965 1973 (2012)
PMID: 22907907 DOI: 10.1002/cmdc.201200292

Abstact

During extracorporeal circulation, when blood comes in contact with artificial surfaces, patients receive a standard treatment with anticoagulants to avoid blood coagulation. Dialysis patients in particular are systemically treated with heparin up to four times a week, causing a high burden for the body. For potential anticoagulant modification of external materials, such as dialysis equipment, a series of highly potent thrombin inhibitors was developed. All inhibitors share the general formula arylsulfonyl-P3-Pro-4-amidinobenzylamide, where P3 is glycyl or a trifunctional amino acid residue in L-configuration. Among this series, several derivatives inhibit thrombin with Ki values of less than 1 nM. Specificity measurements revealed that this inhibitor type is highly specific for thrombin with negligible activity against related trypsin-like serine proteases. X-ray analysis of the most potent analogue in complex with thrombin demonstrated that the N-terminal arylsulfonyl group occupies the aryl binding site, whereas the P3 side chain is directed into the solvent and therefore is well suited for further coupling. Based on their in vitro profile, these inhibitors are suitable candidates for the development of hemocompatible materials with anticoagulant properties.

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Primary Citation of related structures