5sak.1 | SWISS-MODEL Template Library

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SMTL ID : 5sak.1

Endothiapepsin in complex with compound FU5-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

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

DMS.1:	10 residues within 4Å: Chain A: G.126, G.169, F.283, I.306, D.308, T.311, I.389, I.391, I.393 Ligands: ZRY.4 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.169 Salt bridges: A:D.308
DMS.2:	8 residues within 4Å: Chain A: D.104, A.105, D.170, G.310, T.311, T.312, L.313 Ligands: ZRY.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.312 Water bridges: A:L.313 Salt bridges: A:D.170
DMS.3:	7 residues within 4Å: Chain A: S.322, W.325, A.326, A.331, K.332, S.333, Y.340 No protein-ligand interaction detected (PLIP)
DMS.5:	6 residues within 4Å: Chain A: D.170, G.171, S.172, S.202, S.203, S.204 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.202, A:S.203, A:S.204, A:S.204

1 x ZRY: (1Z,3Z)-3-(2-phenylhydrazinylidene)-2,3-dihydro-1H-isoindol-1-imine(Non-covalent)

ZRY.4:

17 residues within 4Å:

Chain A: D.124, G.126, S.127, Y.168, G.169, D.170, S.172, F.205, L.214, D.308, G.310, T.311, Y.315, I.389, I.393
Ligands: DMS.1, DMS.2

15 PLIP interactions:

15 interactions with chain A

Hydrophobic interactions: A:Y.168, A:Y.168, A:Y.168, A:D.170, A:L.214, A:T.311, A:Y.315, A:Y.315, A:I.389, A:I.393
Hydrogen bonds: A:D.124, A:G.169, A:D.170, A:T.311, A:T.311

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6:

8 residues within 4Å:

Chain A: I.360, V.361, P.363, Y.366, A.401, A.402, S.418, K.419

6 PLIP interactions:

6 interactions with chain A

Hydrogen bonds: A:V.361, A:A.401, A:S.418, A:K.419
Water bridges: A:V.361, A:K.419

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Metz, A. et al., Frag4Lead: growing crystallographic fragment hits by catalog using fragment-guided template docking. Acta Crystallogr D Struct Biol (2021)

Release Date

2021-09-01

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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5hct.1 | 5r1t.1 | 5r1u.1 | 5r1v.1 | 5r1w.1 | 5r1x.1 | 5r1y.1 | 5r1z.1 | 5r20.1 | 5r21.1 | 5r22.1 | 5r23.1 | 5r24.1 | 5r25.1 | 5r26.1 | 5r27.1 | 5r28.1 | 5r29.1 | 5r2a.1 | 5r2b.1 | 5r2c.1 | 5r2d.1 | 5r2e.1 | 5r2f.1 | 5r2g.1 | 5r2h.1 | 5r2i.1 | 5r2j.1 | 5r2k.1 | 5r2l.1 more...less...

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