8q0y.1 | SWISS-MODEL Template Library

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SMTL ID : 8q0y.1

Endothiapepsin in complex with ligand (3R,5R)-5-(3-(4-bromophenyl)-1,2,4-oxadiazol-5-yl)-3-(2-((methyl(prop-2-yn-1-yl)amino)methyl)thiazol-4-yl)pyrrolidin-3-ol (CBWS-SE-085.1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.23 Å

Oligo State

monomer

Ligands

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1:	5 residues within 4Å: Chain A: D.81, G.221, T.222, T.223 Ligands: IJ9.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.223 Water bridges: A:L.224
DMS.4:	6 residues within 4Å: Chain A: D.81, G.82, S.83, S.113, S.114, S.115 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.115
DMS.5:	3 residues within 4Å: Chain A: S.213, I.214, D.215 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.215 Water bridges: A:N.303
DMS.8:	3 residues within 4Å: Chain A: Q.28, T.57, I.58 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.29

1 x IJ9: (3~{R},5~{R})-5-[3-(4-bromophenyl)-1,2,4-oxadiazol-5-yl]-3-[2-[[methyl(prop-2-ynyl)amino]methyl]-1,3-thiazol-4-yl]pyrrolidin-3-ol(Non-covalent)

IJ9.2:

17 residues within 4Å:

Chain A: D.33, D.35, G.37, Y.79, G.80, D.81, S.83, S.115, F.116, L.125, F.194, I.217, D.219, G.221, T.222, I.300
Ligands: DMS.1

6 PLIP interactions:

6 interactions with chain A

Hydrophobic interactions: A:F.116, A:F.116, A:I.300, A:I.300
Hydrogen bonds: A:D.35, A:G.80

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3:

6 residues within 4Å:

Chain A: Y.202, A.203, V.204, G.207, T.208, Q.238

5 PLIP interactions:

5 interactions with chain A

Hydrophobic interactions: A:Y.202, A:Q.238
Hydrogen bonds: A:V.204, A:V.204, A:G.207

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

ACT.6:	4 residues within 4Å: Chain A: C.255, D.279, G.281, C.290 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.255
ACT.7:	3 residues within 4Å: Chain A: I.183, T.184, Y.185 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.185

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Mueller, J.M., Crystal structures of Endothiapepsin with ligands derived from merged fragment hits. To Be Published

Release Date

2024-08-07

Peptides

Endothiapepsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Endothiapepsin

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