SMTL ID : 7agb.3 (3 other biounits)

Protease Sapp1p from Candida parapsilosis in complex with KB70

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x BOC- VAL- VAL- PSA- ALA- PSA- ALA: KB70(Non-covalent)

BOC-VAL-VAL-PSA-ALA-PSA-ALA.1: 26 residues within 4Å: Chain A: P.12, S.13, I.30, D.32, G.34, S.35, Y.78, G.79, D.80, S.82, V.113, I.117, N.125, Q.195, L.218, D.220, G.222, T.223, T.224, L.225, Y.227, Y.285, D.301, I.303 Ligands: PGE.4, PGE.5 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:I.30, A:Y.78, A:D.80, A:V.113, A:I.117, A:L.218, A:T.224, A:L.225, A:Y.285, A:D.301 Hydrogen bonds: A:D.32, A:G.34, A:G.79, A:D.80, A:D.80, A:D.80, A:N.125, A:Q.195, A:G.222, A:T.223, A:T.224, A:T.224, A:T.224 Water bridges: A:R.77, A:L.225 pi-Stacking: A:Y.78

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain A: G.79 Ligands: PGE.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.79

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

PGE.3: 6 residues within 4Å: Chain A: S.4, L.5, S.6, K.17, N.96, T.171 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.171 Hydrogen bonds: A:S.6, A:K.17 PGE.4: 9 residues within 4Å: Chain A: I.76, R.77, N.125, E.126, A.127, Y.129, Q.195 Ligands: BOC-VAL-VAL-PSA-ALA-PSA-ALA.1, BOC-VAL-VAL-PSA-ALA-PSA-ALA.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.77, A:Q.195 PGE.5: 7 residues within 4Å: Chain A: G.79, S.299, D.301, I.303 Ligands: BOC-VAL-VAL-PSA-ALA-PSA-ALA.1, BOC-VAL-VAL-PSA-ALA-PSA-ALA.1, NA.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.299, A:D.301

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 6 residues within 4Å: Chain A: N.163, S.164, S.166, A.167, T.169, T.332 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.163, A:S.166 Water bridges: A:N.163 MES.7: 4 residues within 4Å: Chain A: K.148, K.149, Q.150, G.151 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dostal, J. et al., Structural determinants for subnanomolar inhibition of the secreted aspartic protease Sapp1p from Candida parapsilosis . J Enzyme Inhib Med Chem (2021)

Release Date

2021-04-21

Peptides

Candidapepsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Candidapepsin

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