SMTL ID : 7vm6.1

Crystal structure of uPA in complex with 6-amidino-2-naphthol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

1 x 7R8: 6-oxidanylnaphthalene-2-carboximidamide(Non-covalent)

7R8.1: 11 residues within 4Å: Chain A: D.192, S.193, C.194, Q.195, S.198, W.218, G.219, G.221, C.222, G.229 Ligands: SO4.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.192, A:S.193, A:G.221

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: C.31, H.46, Y.150, Q.195, G.196, S.198 Ligands: 7R8.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.196, A:S.198, A:S.198 Water bridges: A:H.46 Salt bridges: A:H.46

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 4 residues within 4Å: Chain A: S.134, E.136, S.205, M.210 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Y. et al., Structural study of the uPA-nafamostat complex reveals a covalent inhibitory mechanism of nafamostat. Biophys.J. (2022)

Release Date

2022-10-12

Peptides

Urokinase-type plasminogen activator chain B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

Urokinase-type plasminogen activator chain B

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