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SMTL ID : 5mb5.1

Cocktail experiment C: fragments 103 and 171 in complex with Endothiapepsin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.98 Å

Oligo State

monomer

Ligands

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

DMS.1:	6 residues within 4Å: Chain A: D.81, G.82, S.83, S.113, S.114, S.115 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.113, A:S.114, A:S.115, A:S.115
DMS.2:	2 residues within 4Å: Chain A: P.26, A.27 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.27

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3:	6 residues within 4Å: Chain A: V.272, P.274, Y.277, A.312, S.329, K.330 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.329, A:K.330, A:K.330 Water bridges: A:V.272
GOL.4:	6 residues within 4Å: Chain A: P.228, S.297, A.298, G.301, I.302, N.303 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.301, A:I.302

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

ACT.5:

6 residues within 4Å:

Chain A: C.255, D.279, G.281, P.282, C.290
Ligands: 46P.6

1 PLIP interactions:

1 interactions with chain A

Hydrogen bonds: A:D.279

1 x 46P: 4-methyl-5-(1-methyl-1H-imidazol-2-yl)-1,3-thiazol-2-amine(Non-covalent)

46P.6:

9 residues within 4Å:

Chain A: Y.163, F.253, A.257, T.258, L.259, G.275, D.276, D.279
Ligands: ACT.5

5 PLIP interactions:

5 interactions with chain A

Hydrophobic interactions: A:F.253, A:L.259, A:D.279
Hydrogen bonds: A:L.259, A:L.259

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Radeva, N. et al., Comparison of cocktails versus single soaking experiments. To Be Published

Release Date

2018-01-17

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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1e5o.1 | 1e80.1 | 1e81.1 | 1e82.1 | 1eed.1 | 1ent.1 | 1epl.1 | 1epm.1 | 1epn.1 | 1epo.1 | 1epp.1 | 1epq.1 | 1epr.1 | 1er8.1 | 1od1.1 | 2er0.1 | 2er6.1 | 2er7.1 | 2er9.1 | 2v00.1 | 3er3.1 | 3er5.1 | 3lzy.1 | 3pb5.1 | 3pbd.1 | 3pbz.1 | 3pcw.1 | 3pcz.1 | 3pgi.1 | 3pi0.1 more...less...

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5j25.1 | 5lwr.1 | 5lws.1 | 5lwt.1 | 5lwu.1 | 5mb0.1 | 5mb3.1 | 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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