4abh.1 | SWISS-MODEL Template Library

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SMTL ID : 4abh.1

Fragments bound to bovine trypsin for the SAMPL challenge

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

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

SO4.1:	3 residues within 4Å: Chain A: K.149, P.153, G.154 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.154 Water bridges: A:Q.155, A:I.156, A:I.156, A:I.156
SO4.2:	5 residues within 4Å: Chain A: H.40, Q.174, G.175, S.177 Ligands: 7Z3.8 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.174, A:G.175, A:S.177, A:S.177 Water bridges: A:S.177, A:S.177 Salt bridges: A:H.40

1 x CA: CALCIUM ION(Non-covalent)

CA.3:

4 residues within 4Å:

Chain A: E.52, N.54, V.57, E.62

6 PLIP interactions:

4 interactions with chain A, 2 Ligand-Water interactions

Metal complexes: A:E.52, A:N.54, A:V.57, A:E.62, H₂O.6, H₂O.6

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

EDO.4:	3 residues within 4Å: Chain A: V.58, E.62, F.64 No protein-ligand interaction detected (PLIP)
EDO.5:	6 residues within 4Å: Chain A: R.49, I.55, N.56, V.57, V.58, F.64 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.49
EDO.6:	4 residues within 4Å: Chain A: N.79, T.80, L.81, W.193 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.193

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

DMS.7:

3 residues within 4Å:

Chain A: N.77, S.78, N.79

2 PLIP interactions:

2 interactions with chain A

Hydrogen bonds: A:S.78
Water bridges: A:N.77

1 x 7Z3: 1-(3-PYRROLIDIN-1-YLPHENYL)METHANAMINE(Non-covalent)

7Z3.8:

12 residues within 4Å:

Chain A: D.171, S.172, C.173, Q.174, S.177, V.191, W.193, G.194, G.196, C.197, G.204
Ligands: SO4.2

3 PLIP interactions:

3 interactions with chain A

Hydrophobic interactions: A:V.191
Hydrogen bonds: A:G.196
Water bridges: A:G.194

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Newman, J. et al., The Dingo Dataset: A Comprehensive Set of Data for the Sampl Challenge. J.Comput.Aided Mol.Des. (2012)

Release Date

2012-02-08

Peptides

CATIONIC TRYPSIN: 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

CATIONIC TRYPSIN

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