SMTL ID : 7ths.2 (1 other biounit)

Macrocyclic plasmin inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x I5Y: (6S,9R,20R,23S)-N-{[4-(aminomethyl)phenyl]methyl}-20-[(benzenesulfonyl)amino]-3,13,21-trioxo-2,6,9,14,22-pentaazatetracyclo[23.2.2.2~6,9~.2~15,18~]tritriaconta-1(27),15,17,25,28,30-hexaene-23-carboxamide(Non-covalent)

I5Y.1: 16 residues within 4Å: Chain A: H.62, D.105, R.178, D.194, S.195, C.196, Q.197, A.200, T.218, S.219, W.220, G.221, L.222, G.223, C.224, G.231 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:R.178, A:Q.197, A:T.218, A:W.220, A:W.220, A:W.220, A:W.220 Hydrogen bonds: A:D.194, A:S.219, A:G.221, A:G.221, A:G.223 Water bridges: A:W.220, A:V.232, A:Y.233 pi-Stacking: A:H.62

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

SO4.2: 3 residues within 4Å: Chain A: K.15, H.28, P.29 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.15, A:H.28 SO4.3: 2 residues within 4Å: Chain A: R.171, Y.172 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.172 Salt bridges: A:R.171 SO4.4: 3 residues within 4Å: Chain A: R.69, P.70, S.71 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.71, A:S.71, A:S.71

1 x I5Q: (2S)-butane-1,2-diol(Non-covalent)

I5Q.5: 6 residues within 4Å: Chain A: Y.172, E.173, F.174, N.176, R.178, K.229 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.176, A:R.178, A:R.178

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wiedemeyer, S.J.A. et al., Synthesis and Structural Characterization of Macrocyclic Plasmin Inhibitors. Chemmedchem (2023)

Release Date

2023-01-18

Peptides

Plasminogen: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Plasminogen

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