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SMTL ID : 3prs.1

Endothiapepsin in complex with ritonavir

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

1 x RIT: RITONAVIR(Non-covalent)

RIT.1:

27 residues within 4Å:

Chain A: I.10, D.11, D.15, A.16, D.33, D.35, G.37, I.77, S.78, Y.79, G.80, D.81, D.119, L.125, L.133, T.135, F.194, I.217, D.219, G.221, T.222, T.223, Y.226, I.300, I.304
Ligands: DMS.2, 1PE.3

17 PLIP interactions:

17 interactions with chain A

Hydrophobic interactions: A:I.10, A:D.15, A:Y.79, A:L.125, A:F.194, A:I.217, A:Y.226, A:I.300
Hydrogen bonds: A:G.37, A:G.37, A:G.80, A:D.81, A:D.81, A:D.219, A:G.221, A:T.223
Water bridges: A:S.78

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

DMS.2:

4 residues within 4Å:

Chain A: S.115, F.116, D.119
Ligands: RIT.1

1 PLIP interactions:

1 interactions with chain A

Salt bridges: A:D.119

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.3:

10 residues within 4Å:

Chain A: D.15, T.223, L.224, Y.226, V.248, F.280, P.282, I.283, F.291
Ligands: RIT.1

1 PLIP interactions:

1 interactions with chain A

Water bridges: A:Y.226

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

PGE.4:

6 residues within 4Å:

Chain A: A.187, S.189, E.196, W.197, T.198, D.215

3 PLIP interactions:

3 interactions with chain A

Water bridges: A:S.189, A:Q.192, A:T.198

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5:

6 residues within 4Å:

Chain A: V.272, P.274, Y.277, A.312, S.329, K.330

3 PLIP interactions:

3 interactions with chain A

Hydrogen bonds: A:K.330, A:K.330
Water bridges: A:V.272

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Behnen, J. et al., Experimental and computational active site mapping as a starting point to fragment-based lead discovery. Chemmedchem (2012)

Release Date

2011-10-26

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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5lwr.1 | 5lws.1 | 5lwt.1 | 5lwu.1 | 5mb0.1 | 5mb3.1 | 5mb5.1 | 5mb6.1 | 5mb7.1 | 5og7.1 | 5oje.1 | 5oyq.1 | 5oyr.1 | 5oys.1 | 5oyt.1 | 5oyu.1 | 5oyv.1 | 5oyw.1 | 5oyx.1 | 5oyy.1 | 5oyz.1 | 5oz0.1 | 5oz1.1 | 5oz2.1 | 5oz3.1 | 5oz4.1 | 5oz5.1 | 5oz6.1 | 5oz7.1 | 5oz8.1 | 5oz9.1 | 5oza.1 | 5ozb.1 | 5ozc.1 | 5ozd.1 | 5oze.1 | 5ozf.1 | 5ozg.1 | 5ozh.1 | 5ozi.1 | 5ozj.1 | 5ozk.1 | 5ozl.1 | 5ozm.1 | 5ozn.1 | 5ozo.1 | 5ozp.1 | 5ozq.1 | 5ozr.1 | 5ozs.1 | 5ozt.1 | 5ozu.1 | 5ozv.1 | 5ozw.1 | 5ozx.1 | 5ozy.1 | 5ozz.1 | 5p00.1 | 5p01.1 | 5p02.1 | 5p03.1 | 5p04.1 | 5p05.1 | 5p06.1 | 5p07.1 | 5p08.1 | 5p09.1 | 5p0a.1 | 5p0b.1 | 5p0c.1 | 5p0d.1 | 5p0e.1 | 5p0f.1 | 5p0g.1 | 5p0h.1 | 5p0i.1 | 5p0j.1 | 5p0k.1 | 5p0l.1 | 5p0m.1 | 5p0n.1 | 5p0o.1 | 5p0p.1 | 5p0q.1 | 5p0r.1 | 5p0s.1 | 5p0t.1 | 5p0u.1 | 5p0v.1 | 5p0w.1 | 5p0x.1 | 5p0y.1 | 5p0z.1 | 5p10.1 | 5p11.1 | 5p12.1 | 5p13.1 | 5p14.1 | 5p15.1 | 5p16.1 | 5p17.1 | 5p18.1 | 5p19.1 | 5p1a.1 | 5p1b.1 | 5p1c.1 | 5p1d.1 | 5p1e.1 | 5p1f.1 | 5p1g.1 | 5p1h.1 | 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