SMTL ID : 3ig6.3 (3 other biounits)

Low molecular weigth human Urokinase type Plasminogen activator 2-[6-(3'-Aminomethyl-biphenyl-3-yloxy)-4-(3-dimethylamino-pyrrolidin-1-yl)-3,5-difluoro-pyridin-2-yloxy]-4-dimethylamino-benzoic acid complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

hetero-4-4-mer

Ligands

4 x 438: 2-[(6-{[3'-(aminomethyl)biphenyl-3-yl]oxy}-4-[(3R)-3-(dimethylamino)pyrrolidin-1-yl]-3,5-difluoropyridin-2-yl)oxy]-4-(dimethylamino)benzoic acid(Non-covalent)

438.1: 25 residues within 4Å: Chain B: V.30, C.31, H.46, A.89, L.92, A.93, H.94, D.192, S.193, C.194, Q.195, G.196, D.197, S.198, V.216, W.218, G.219, G.221, C.222 Chain D: I.49, D.50, K.85, Y.87, S.88, A.89 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:Q.195, B:V.216, D:I.49 Hydrogen bonds: B:G.196, B:D.197, B:S.198, B:S.198, B:G.221 Salt bridges: B:H.46 Water bridges: D:A.89 438.2: 21 residues within 4Å: Chain B: Y.148, L.149 Chain D: K.142, N.144, S.145, D.192, S.193, C.194, Q.195, S.198, V.216, W.218, G.219, R.220, G.221, C.222, G.229 Chain F: T.8, N.11, R.115 Ligands: PO4.3 10 PLIP interactions: 6 interactions with chain D, 3 interactions with chain B, 1 interactions with chain F Hydrophobic interactions: D:Q.195, D:V.216, B:Y.148, B:Y.148, B:L.149 Hydrogen bonds: D:G.221, D:G.221, D:C.222 Salt bridges: D:R.220, F:R.115 438.4: 25 residues within 4Å: Chain F: V.30, C.31, H.46, A.89, L.92, A.93, H.94, D.192, S.193, C.194, Q.195, G.196, D.197, S.198, V.216, W.218, G.219, G.221, C.222 Chain H: I.49, D.50, K.85, Y.87, S.88, A.89 10 PLIP interactions: 2 interactions with chain H, 8 interactions with chain F Hydrophobic interactions: H:I.49, F:Q.195, F:V.216 Water bridges: H:A.89 Hydrogen bonds: F:G.196, F:D.197, F:S.198, F:S.198, F:G.221 Salt bridges: F:H.46 438.5: 21 residues within 4Å: Chain B: T.8, N.11, R.115 Chain F: Y.148, L.149 Chain H: K.142, N.144, S.145, D.192, S.193, C.194, Q.195, S.198, V.216, W.218, G.219, R.220, G.221, C.222, G.229 Ligands: PO4.6 10 PLIP interactions: 3 interactions with chain F, 6 interactions with chain H, 1 interactions with chain B Hydrophobic interactions: F:Y.148, F:Y.148, F:L.149, H:Q.195, H:V.216 Hydrogen bonds: H:G.221, H:G.221, H:C.222 Salt bridges: H:R.220, B:R.115

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 6 residues within 4Å: Chain D: H.46, Q.195, G.196, D.197, S.198 Ligands: 438.2 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:Q.195, D:G.196, D:D.197, D:S.198, D:S.198, D:S.198 Water bridges: D:H.46 Salt bridges: D:H.46 PO4.6: 6 residues within 4Å: Chain H: H.46, Q.195, G.196, D.197, S.198 Ligands: 438.5 8 PLIP interactions: 8 interactions with chain H Hydrogen bonds: H:Q.195, H:G.196, H:D.197, H:S.198, H:S.198, H:S.198 Water bridges: H:H.46 Salt bridges: H:H.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

West, C.W. et al., Identification of orally bioavailable, non-amidine inhibitors of Urokinase Plasminogen Activator (uPA). Bioorg.Med.Chem.Lett. (2009)

Release Date

2009-10-13

Peptides

Urokinase-type plasminogen activator: ACEG
Urokinase-type plasminogen activator: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
A

G
C

B
B

D
D

F
B

H
D

Urokinase-type plasminogen activator

Urokinase-type plasminogen activator

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