Thrombomodulin (THBD) is a 575-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P07204.
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The mean pLDDT of this model is 78.6 (confident overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 41% |
| 70 to 90 | Confident: backbone generally right | 35% |
| 50 to 70 | Low: treat with caution | 11% |
| Below 50 | Very low: often disordered regions | 13% |
What pLDDT means and how to read it
Endothelial cell receptor that plays a critical role in regulating several physiological processes including hemostasis, coagulation, fibrinolysis, inflammation, and angiogenesis (PubMed:10761923). Acts as a cofactor for thrombin activation of protein C/PROC on the surface of vascular endothelial cells leading to initiation of the activated protein C anticoagulant pathway (PubMed:29323190, PubMed:33836597, PubMed:9395524). Also accelerates the activation of the plasma carboxypeptidase B2/CPB2, which catalyzes removal of C-terminal basic amino acids from its substrates including kinins or anaphylatoxins leading to fibrinolysis inhibition (PubMed:26663133). Plays critical protective roles in…
Interacts with ITGAL, ITGAM and ITGB2. Interacts with thrombin/F2; this interaction switches the specificity of thrombin from a procoagulant to an anticoagulant and antifibrinolytic protease (PubMed:10761923). Interacts with ANGP1 and ANGP2; these interactions significantly inhibit the generation of activated PC and TAFIa/CPB2 by the thrombin/thrombomodulin complex (PubMed:29323190). Interacts…
Membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1DX5 | X-ray | 2.3 Å | I/J/K/L=363-480 |
| 5TO3 | X-ray | 2.34 Å | B=363-483 |
| 3GIS | X-ray | 2.4 Å | X/Y/Z=363-483 |
| 1HLT | X-ray | 3.0 Å | R=426-444 |
| 7T4R | EM | 3.3 Å | A=1-516 |
| 1ADX | NMR | A=405-444 | |
| 1DQB | NMR | A=362-444 | |
| 1EGT | NMR | A=427-444 | |
| 1FGD | NMR | A=427-444 | |
| 1FGE | NMR | A=425-444 | |
| 1TMR | NMR | A=389-407 | |
| 1ZAQ | NMR | A=364-407 | |
| 2ADX | NMR | A=405-444 |
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