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Exploring thrombin S3 pocket

Source organisms:
Biochemical function: serine-type endopeptidase activity
Biological process: blood coagulation
Cellular component: extracellular region

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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

Biochemical function:
Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF09396
Domain description: Thrombin light chain
Occurring in:
  1. Thrombin light chain
The deposited structure of PDB entry 2zhf contains 1 copy of Pfam domain PF09396 (Thrombin light chain) in Thrombin light chain. Showing 1 copy in chain A [auth L].

PF00089
Domain description: Trypsin
Occurring in:
  1. Thrombin heavy chain
The deposited structure of PDB entry 2zhf contains 1 copy of Pfam domain PF00089 (Trypsin) in Thrombin heavy chain. Showing 1 copy in chain B [auth H].

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
IPR043504
Domain description: Peptidase S1, PA clan, chymotrypsin-like fold
Occurring in:
  1. Thrombin heavy chain
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
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

Structure domain

CATH CATH domain
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 2zhf contains 2 copies of CATH domain 2.40.10.10 (Thrombin, subunit H) in Thrombin heavy chain. Showing 2 copies in chain B [auth H].

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