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SMTL ID : 3t6i.1

Endothiapepsin in complex with an azepin derivative

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

1 x NC8: (3R)-3-({(4-aminobenzyl)[(4-aminophenyl)acetyl]amino}methyl)-5-{[(4-bromobenzoyl)oxy]methyl}-2,3,4,7-tetrahydro-1H-azepinium(Non-covalent)

NC8.1:

19 residues within 4Å:

Chain A: D.35, G.37, I.77, S.78, Y.79, G.80, D.81, L.133, T.135, F.194, D.219, G.221, T.222, Y.226, S.296, I.300, I.304
Ligands: NC9.2, Z82.3

9 PLIP interactions:

9 interactions with chain A

Hydrophobic interactions: A:I.77, A:L.133, A:F.194, A:I.300, A:I.300, A:I.304
Hydrogen bonds: A:G.80, A:L.133, A:D.219

1 x NC9: (3R)-3-({(4-aminobenzyl)[(4-aminophenyl)acetyl]amino}methyl)-5-(hydroxymethyl)-2,3,4,7-tetrahydro-1H-azepinium(Non-covalent)

NC9.2:

12 residues within 4Å:

Chain A: I.10, D.15, D.35, Y.79, D.81, D.119, L.125, G.221, T.222, T.223, Y.226
Ligands: NC8.1

10 PLIP interactions:

10 interactions with chain A

Hydrophobic interactions: A:D.15, A:Y.79, A:D.81
Hydrogen bonds: A:D.35, A:D.119, A:T.223
Water bridges: A:L.224, A:Y.226, A:Y.226
pi-Stacking: A:Y.79

1 x Z82: 4-bromobenzoic acid(Non-covalent)

Z82.3:

4 residues within 4Å:

Chain A: G.80, I.217, I.300
Ligands: NC8.1

1 PLIP interactions:

1 interactions with chain A

Hydrophobic interactions: A:I.300

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4:

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

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.5:

2 residues within 4Å:

Chain A: G.181, S.182

3 PLIP interactions:

3 interactions with chain A

Hydrogen bonds: A:S.182
Water bridges: A:T.184, A:S.268

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

DMS.6:	4 residues within 4Å: Chain A: S.233, W.236, A.237, A.242 No protein-ligand interaction detected (PLIP)
DMS.7:	6 residues within 4Å: Chain A: D.81, G.82, S.83, S.113, S.114, S.115 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.115

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.8:

1 residues within 4Å:

Chain A: S.287

Ligand excluded by PLIP

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Koester, H. et al., Endothiapepsin in complex with an azepin derivative. To be Published

Release Date

2012-08-01

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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