SMTL ID : 4fuf.1

Crystal Structure of the Urokinase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x 8UP: 8-(3-bromopropoxy)-7-methoxynaphthalene-2-carboximidamide(Non-covalent)

8UP.1: 19 residues within 4Å: Chain A: H.46, K.142, S.145, D.192, S.193, C.194, Q.195, S.198, V.216, S.217, W.218, G.219, R.220, G.221, C.222, A.223, K.227, G.229 Ligands: SIN.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.216 Hydrogen bonds: A:D.192, A:S.193, A:Q.195, A:G.221 Halogen bonds: A:S.145

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.2: 7 residues within 4Å: Chain A: V.30, C.31, H.46, Q.195, G.196, S.198 Ligands: 8UP.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.195, A:G.196, A:S.198, A:S.198 Water bridges: A:H.46 Salt bridges: A:H.46

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

SO4.3: 4 residues within 4Å: Chain A: N.96, K.180, H.236, F.237 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.96, A:K.180 Salt bridges: A:K.180, A:H.236 SO4.4: 3 residues within 4Å: Chain A: Y.126, R.233, H.236 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.233, A:H.236, A:H.236 Salt bridges: A:R.233, A:H.236 SO4.5: 4 residues within 4Å: Chain A: H.95, T.178, K.180, M.181 5 PLIP interactions: 5 interactions with chain A Water bridges: A:N.96, A:K.180, A:K.180 Salt bridges: A:H.95, A:K.180

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 2 residues within 4Å: Chain A: K.75, K.106 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.75, A:K.75 Water bridges: A:K.75, A:K.75, A:K.106, A:E.107, A:E.107 GOL.7: 7 residues within 4Å: Chain A: Y.19, V.27, I.58, Y.60, R.63, L.66, N.67 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.60, A:R.63, A:R.63, A:N.67 GOL.8: 4 residues within 4Å: Chain A: R.20, H.22, R.23, Y.51 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.20, A:H.22, A:R.23, A:Y.51 GOL.9: 3 residues within 4Å: Chain A: T.28, Y.29, Y.150 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.29 Water bridges: A:Y.150

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.10: 3 residues within 4Å: Chain A: Q.168, T.178, T.179 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.168, A:T.179 Water bridges: A:T.178, A:T.179 Salt bridges: A:H.164 ACT.11: 2 residues within 4Å: Chain A: T.91, E.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.91 Water bridges: A:T.91 ACT.12: 2 residues within 4Å: Chain A: R.220, K.227 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.220 Water bridges: A:K.227 Salt bridges: A:R.220, A:K.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, Y.N. et al., Crystal Structure of the Urokinase. to be published

Release Date

2012-08-22

Peptides

Urokinase-type plasminogen activator: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Urokinase-type plasminogen activator

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