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Structure of Human Urokinase Plasminogen Activator in Complex with Urokinase Receptor and an anti-upar antibody at 1.9 A

Source organisms:
Biochemical function: metal ion binding
Biological process: immune response
Cellular component: extracellular space

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EC 3.4.21.73: U-plasminogen activator

Reaction catalysed:
Specific cleavage of Arg-|-Val bond in plasminogen to form plasmin.
Systematic name:
-
Alternative Name(s):
  • Abbokinase
  • Cellular plasminogen activator
  • Double-chain urokinase-type plasminogen activator
  • Two-chain urokinase-type plasminogen activator
  • U-PA
  • UPA
  • Urinary esterase A
  • Urinary plasminogen activator
  • Urokinase
  • Urokinase plasminogen activator
  • Urokinase-type plasminogen activator

GO terms

Sequence families

Pfam Protein families (Pfam)
PF00021
Domain description: u-PAR/Ly-6 domain
Occurring in:
  1. Urokinase plasminogen activator surface receptor
The deposited structure of PDB entry 2fd6 contains 2 copies of Pfam domain PF00021 (u-PAR/Ly-6 domain) in Urokinase plasminogen activator surface receptor. Showing 2 copies in chain D [auth U].

PF07686
Domain description: Immunoglobulin V-set domain
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
The deposited structure of PDB entry 2fd6 contains 1 copy of Pfam domain PF07686 (Immunoglobulin V-set domain) in Ig-like domain-containing protein. Showing 1 copy in chain B [auth L].
The deposited structure of PDB entry 2fd6 contains 1 copy of Pfam domain PF07686 (Immunoglobulin V-set domain) in Ig-like domain-containing protein. Showing 1 copy in chain C [auth H].

PF07654
Domain description: Immunoglobulin C1-set domain
Occurring in:
  1. Ig-like domain-containing protein
The deposited structure of PDB entry 2fd6 contains 1 copy of Pfam domain PF07654 (Immunoglobulin C1-set domain) in Ig-like domain-containing protein. Showing 1 copy in chain B [auth L].

PF00051
Domain description: Kringle domain
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
The deposited structure of PDB entry 2fd6 contains 1 copy of Pfam domain PF00051 (Kringle domain) in Urokinase-type plasminogen activator long chain A. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR016054
Domain description: Ly-6 antigen/uPA receptor-like
Occurring in:
  1. Urokinase plasminogen activator surface receptor
IPR045860
Domain description: Snake toxin-like superfamily
Occurring in:
  1. Urokinase plasminogen activator surface receptor
IPR003597
Domain description: Immunoglobulin C1-set
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR013106
Domain description: Immunoglobulin V-set domain
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR036179
Domain description: Immunoglobulin-like domain superfamily
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR013783
Domain description: Immunoglobulin-like fold
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR007110
Domain description: Immunoglobulin-like domain
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR000001
Domain description: Kringle
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
IPR003599
Domain description: Immunoglobulin subtype
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
IPR000742
Domain description: EGF-like domain
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
IPR018363
Domain description: CD59 antigen, conserved site
Occurring in:
  1. Urokinase plasminogen activator surface receptor
IPR003006
Domain description: Immunoglobulin/major histocompatibility complex, conserved site
Occurring in:
  1. Ig-like domain-containing protein
IPR018056
Domain description: Kringle, conserved site
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
IPR038178
Domain description: Kringle superfamily
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
IPR013806
Domain description: Kringle-like fold
Occurring in:
  1. Urokinase-type plasminogen activator long chain A

Structure domains

CATH CATH domains
2.60.40.10
Class: Mainly Beta
Architecture: Sandwich
Topology: Immunoglobulin-like
Homology: Immunoglobulins
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
The deposited structure of PDB entry 2fd6 contains 2 copies of CATH domain 2.60.40.10 (Immunoglobulin-like) in Ig-like domain-containing protein. Showing 2 copies in chain B [auth L].
The deposited structure of PDB entry 2fd6 contains 2 copies of CATH domain 2.60.40.10 (Immunoglobulin-like) in Ig-like domain-containing protein. Showing 2 copies in chain C [auth H].
2.10.60.10
Class: Mainly Beta
Architecture: Ribbon
Topology: CD59
Homology: CD59
Occurring in:
  1. Urokinase plasminogen activator surface receptor
The deposited structure of PDB entry 2fd6 contains 3 copies of CATH domain 2.10.60.10 (CD59) in Urokinase plasminogen activator surface receptor. Showing 3 copies in chain D [auth U].
2.40.20.10
Class: Mainly Beta
Architecture: Beta Barrel
Topology: Plasminogen Kringle 4
Homology: Plasminogen Kringle 4
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
The deposited structure of PDB entry 2fd6 contains 1 copy of CATH domain 2.40.20.10 (Plasminogen Kringle 4) in Urokinase-type plasminogen activator long chain A. Showing 1 copy in chain A.
2.10.25.10
Class: Mainly Beta
Architecture: Ribbon
Topology: Laminin
Homology: Laminin
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
The deposited structure of PDB entry 2fd6 contains 1 copy of CATH domain 2.10.25.10 (Laminin) in Urokinase-type plasminogen activator long chain A. Showing 1 copy in chain A.
SCOP SCOP annotations
57354
Class: Small proteins
Fold: Snake toxin-like
Superfamily: Snake toxin-like
Occurring in:
  1. Urokinase plasminogen activator surface receptor
The deposited structure of PDB entry 2fd6 contains 3 copies of SCOP domain 57354 (Extracellular domain of cell surface receptors) in Urokinase plasminogen activator surface receptor. Showing 3 copies in chain D [auth U].
48942
Class: All beta proteins
Fold: Immunoglobulin-like beta-sandwich
Superfamily: Immunoglobulin
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 48942 (C1 set domains (antibody constant domain-like)) in Ig-like domain-containing protein. Showing 1 copy in chain B [auth L].
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 48942 (C1 set domains (antibody constant domain-like)) in Ig-like domain-containing protein. Showing 1 copy in chain C [auth H].
48727
Class: All beta proteins
Fold: Immunoglobulin-like beta-sandwich
Superfamily: Immunoglobulin
Occurring in:
  1. Ig-like domain-containing protein
  2. Ig-like domain-containing protein
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 48727 (V set domains (antibody variable domain-like)) in Ig-like domain-containing protein. Showing 1 copy in chain B [auth L].
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 48727 (V set domains (antibody variable domain-like)) in Ig-like domain-containing protein. Showing 1 copy in chain C [auth H].
57441
Class: Small proteins
Fold: Kringle-like
Superfamily: Kringle-like
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 57441 (Kringle modules) in Urokinase-type plasminogen activator long chain A. Showing 1 copy in chain A.
57197
Class: Small proteins
Fold: Knottins (small inhibitors, toxins, lectins)
Superfamily: EGF/Laminin
Occurring in:
  1. Urokinase-type plasminogen activator long chain A
The deposited structure of PDB entry 2fd6 contains 1 copy of SCOP domain 57197 (EGF-type module) in Urokinase-type plasminogen activator long chain A. Showing 1 copy in chain A.

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