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SMTL ID : 8q14.1

Endothiapepsin in complex with ligand (3R,5R)-3-(2-((methyl(prop-2-yn-1-yl)amino)methyl)thiazol-4-yl)-5-(3-(2-nitro-4-(trifluoromethyl)phenyl)-1,2,4-oxadiazol-5-yl)pyrrolidin-3-ol (CBWS-SE-171)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.13 Å

Oligo State

monomer

Ligands

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

MPD.1:	5 residues within 4Å: Chain A: A.203, V.204, G.207, T.208, Q.238 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.238 Hydrogen bonds: A:V.204, A:V.204, A:G.207
MPD.2:	7 residues within 4Å: Chain A: G.241, K.243, V.252, F.253, P.254, S.288, S.289 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.243 Hydrogen bonds: A:G.241

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

DMS.3:

3 residues within 4Å:

Chain A: G.205, S.206, Q.238

1 PLIP interactions:

1 interactions with chain A

Hydrogen bonds: A:S.206

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

IJS.4:

16 residues within 4Å:

Chain A: D.33, D.35, G.37, Y.79, G.80, D.81, S.83, S.115, F.116, D.119, L.125, F.194, D.219, G.221, T.222, I.300

6 PLIP interactions:

6 interactions with chain A

Hydrophobic interactions: A:F.116, A:I.300
Hydrogen bonds: A:G.80, A:D.219
pi-Stacking: A:Y.79
Halogen bonds: A:D.119

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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