› › Function and Biology

Crystal structure of the thrombin-thrombomodulin complex

Source organism: Homo sapiens
Biochemical function: calcium ion binding
Biological process: blood coagulation
Cellular component: membrane

Quick links

EC 3.4.21.5: Thrombin

Reaction catalysed:
Selective cleavage of Arg-|-Gly bonds in fibrinogen to form fibrin and release fibrinopeptides A and B.
Systematic name:
-
Alternative Name(s):
  • Activated blood-coagulation factor II
  • Beta-thrombin
  • Blood-coagulation factor IIa
  • E thrombin
  • Factor IIa
  • Fibrinogenase
  • Gamma-thrombin
  • Thrombase
  • Thrombin-C
  • Thrombofort
  • Topical
  • Tropostasin

GO terms

Sequence families

Pfam Protein families (Pfam)
PF00089
Domain description: Trypsin
Occurring in:
  1. Thrombin heavy chain
The deposited structure of PDB entry 1dx5 contains 4 copies of Pfam domain PF00089 (Trypsin) in Thrombin heavy chain. Showing 1 copy in chain I [auth M].

PF12662
Domain description: Complement Clr-like EGF-like
Occurring in:
  1. Thrombomodulin

PF09396
Domain description: Thrombin light chain
Occurring in:
  1. Thrombin light chain
The deposited structure of PDB entry 1dx5 contains 4 copies of Pfam domain PF09396 (Thrombin light chain) in Thrombin light chain. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR003966
Domain description: Prothrombin/thrombin
Occurring in:
  1. Thrombin heavy chain
IPR001314
Domain description: Peptidase S1A, chymotrypsin family
Occurring in:
  1. Thrombin heavy chain
IPR001254
Domain description: Serine proteases, trypsin domain
Occurring in:
  1. Thrombin heavy chain
IPR000742
Domain description: EGF-like domain
Occurring in:
  1. Thrombomodulin
IPR043504
Domain description: Peptidase S1, PA clan, chymotrypsin-like fold
Occurring in:
  1. Thrombin heavy chain
IPR001881
Domain description: EGF-like calcium-binding domain
Occurring in:
  1. Thrombomodulin
IPR033116
Domain description: Serine proteases, trypsin family, serine active site
Occurring in:
  1. Thrombin heavy chain
IPR018114
Domain description: Serine proteases, trypsin family, histidine active site
Occurring in:
  1. Thrombin heavy chain
IPR009003
Domain description: Peptidase S1, PA clan
Occurring in:
  1. Thrombin heavy chain
IPR018097
Domain description: EGF-like calcium-binding, conserved site
Occurring in:
  1. Thrombomodulin
IPR015149
Domain description: Thrombomodulin-like, EGF-like
Occurring in:
  1. Thrombomodulin
IPR037111
Domain description: Thrombin light chain domain superfamily
Occurring in:
  1. Thrombin light chain
IPR018992
Domain description: Thrombin light chain
Occurring in:
  1. Thrombin light chain

Structure domains

CATH CATH domains
2.40.10.10
Class: Mainly Beta
Architecture: Beta Barrel
Topology: Thrombin, subunit H
Homology: Trypsin-like serine proteases
Occurring in:
  1. Thrombin heavy chain
The deposited structure of PDB entry 1dx5 contains 8 copies of CATH domain 2.40.10.10 (Thrombin, subunit H) in Thrombin heavy chain. Showing 2 copies in chain I [auth M].
2.10.25.10
Class: Mainly Beta
Architecture: Ribbon
Topology: Laminin
Homology: Laminin
Occurring in:
  1. Thrombomodulin
The deposited structure of PDB entry 1dx5 contains 12 copies of CATH domain 2.10.25.10 (Laminin) in Thrombomodulin. Showing 3 copies in chain E [auth I].
SCOP SCOP annotations
57197
Class: Small proteins
Fold: Knottins (small inhibitors, toxins, lectins)
Superfamily: EGF/Laminin
Occurring in:
  1. Thrombomodulin
The deposited structure of PDB entry 1dx5 contains 12 copies of SCOP domain 57197 (EGF-type module) in Thrombomodulin. Showing 3 copies in chain E [auth I].
50514
Class: All beta proteins
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Occurring in:
  1. Thrombin light chain
  2. Thrombin heavy chain
The deposited structure of PDB entry 1dx5 contains 4 copies of SCOP domain 50514 (Eukaryotic proteases) in Thrombin light chain. Showing 1 copy in chain A.

Quick links