SMTL ID : 1bxo.1

ACID PROTEINASE (PENICILLOPEPSIN) (E.C.3.4.23.20) COMPLEX WITH PHOSPHONATE INHIBITOR: METHYL CYCLO[(2S)-2-[[(1R)-1-(N-(L-N-(3-METHYLBUTANOYL)VALYL-L-ASPARTYL)AMINO)-3-METHYLBUT YL] HYDROXYPHOSPHINYLOXY]-3-(3-AMINOMETHYL) PHENYLPROPANOATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 0.95 Å

Oligo State

monomer

Ligands

2 x MAN: alpha-D-mannopyranose(Post Translational Modification)

MAN.1: 5 residues within 4Å: Chain A: A.1, A.2, S.3, A.149, F.169 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.3 MAN.2: 4 residues within 4Å: Chain A: V.5, A.6, T.7, V.164 No protein-ligand interaction detected (PLIP)

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

SO4.3: 3 residues within 4Å: Chain A: Y.175, S.178, L.179 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.175, A:S.178, A:L.179 Water bridges: A:S.172, A:S.172, A:S.172

1 x PP7: METHYL CYCLO[(2S)-2-[[(1R)-1-(N-(L-N-(3-METHYLBUTANOYL)VALYL-L-ASPARTYL)AMINO)-3-METHYLBUTYL]HYDROXYPHOSPHINYLOXY]-3-(3-AMINOMETHYL)PHENYLPROPANOATE(Non-covalent)

PP7.4: 27 residues within 4Å: Chain A: E.15, E.16, N.31, D.33, G.35, S.36, S.74, Y.75, G.76, D.77, S.79, Q.111, F.112, L.121, F.190, I.211, D.213, G.215, T.216, T.217, L.218, L.220, Y.274, L.284, I.293, F.295, I.297 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:E.15, A:Y.75, A:Y.75, A:D.77, A:L.121, A:I.211, A:L.218, A:Y.274, A:L.284, A:I.293, A:I.297 Hydrogen bonds: A:E.15, A:D.33, A:G.76, A:D.77, A:D.77, A:G.215, A:G.215, A:T.216, A:T.216, A:T.217, A:T.217, A:T.217 Water bridges: A:L.218

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 1 residues within 4Å: Chain A: S.172 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.172, A:S.172 GOL.6: 2 residues within 4Å: Chain A: S.74, S.80 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.74 Water bridges: A:S.72, A:G.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khan, A.R. et al., Lowering the entropic barrier for binding conformationally flexible inhibitors to enzymes. Biochemistry (1998)

Release Date

1998-10-14

Peptides

PROTEIN (PENICILLOPEPSIN): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PROTEIN (PENICILLOPEPSIN)

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