4y39.1 | SWISS-MODEL Template Library

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SMTL ID : 4y39.1

Endothiapepsin in complex with fragment 75

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1:

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

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2:

7 residues within 4Å:

Chain A: A.187, V.188, S.189, E.196, W.197, T.198, D.215

2 PLIP interactions:

2 interactions with chain A

Hydrogen bonds: A:E.196
Water bridges: A:Q.192

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

ACT.3:

5 residues within 4Å:

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

2 PLIP interactions:

2 interactions with chain A

Hydrogen bonds: A:D.279, A:G.281

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4:

5 residues within 4Å:

Chain A: D.15, T.223, L.224, F.280, F.291

No protein-ligand interaction detected (PLIP)

1 x 45M: 4-bromo-N'-(3,4-dihydro-2H-pyrrol-5-yl)benzohydrazide(Non-covalent)

45M.5:

15 residues within 4Å:

Chain A: D.35, G.37, Y.79, G.80, D.81, L.125, F.194, I.217, D.219, G.221, T.222, I.300, I.302, I.304
Ligands: DMS.6

9 PLIP interactions:

9 interactions with chain A

Hydrophobic interactions: A:Y.79, A:L.125, A:F.194, A:I.217, A:I.304
Hydrogen bonds: A:D.35, A:G.80, A:D.219, A:T.222

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

DMS.6:	5 residues within 4Å: Chain A: D.81, G.221, T.222, T.223 Ligands: 45M.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.223 Salt bridges: A:D.81
DMS.7:	4 residues within 4Å: Chain A: A.237, Q.238, V.239, S.240 No protein-ligand interaction detected (PLIP)
DMS.8:	6 residues within 4Å: Chain A: S.233, W.236, A.237, A.242, K.243, Y.251 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.251

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Schiebel, J. et al., Crystallographic Fragment Screening of an Entire Library. To Be Published

Release Date

2016-02-17

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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