SMTL ID : 3qk1.1

Crystal Structure of Enterokinase-like Trypsin Variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.52, N.54, V.57, E.62 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.52, A:N.54, A:V.57, A:E.62, H2O.1

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

SO4.2: 6 residues within 4Å: Chain A: H.40, Q.174, G.175, S.177 Ligands: IMD.8, BEN.11 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.175, A:S.177, A:S.177, A:S.177 Salt bridges: A:H.40 SO4.3: 3 residues within 4Å: Chain A: R.49, F.64 Ligands: EDO.6 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.49, A:R.49, A:R.49 Salt bridges: A:R.49 SO4.4: 5 residues within 4Å: Chain A: K.149, Y.152, P.153, G.154, Q.155 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.154

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

EDO.5: 4 residues within 4Å: Chain A: Y.5, C.7, T.11, L.117 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.7, A:T.11 EDO.6: 7 residues within 4Å: Chain A: N.19, G.21, Y.22, H.23, I.55, N.56 Ligands: SO4.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.19, A:H.23 EDO.7: 2 residues within 4Å: Chain A: T.157, S.158 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.158, A:S.158 EDO.9: 3 residues within 4Å: Chain A: K.125, S.126, S.127 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.126, A:S.127, A:S.127

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.8: 4 residues within 4Å: Chain A: F.24, C.25, H.40 Ligands: SO4.2 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 4 residues within 4Å: Chain A: P.132, D.133, V.134, K.136 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.133, A:V.134, A:K.136

1 x BEN: BENZAMIDINE(Non-functional Binders)

BEN.11: 12 residues within 4Å: Chain A: D.171, S.172, Q.174, S.177, V.191, S.192, W.193, G.194, G.196, C.197, G.204 Ligands: SO4.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.191 Hydrogen bonds: A:D.171, A:G.196 Water bridges: A:V.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schopfel, M. et al., Towards a restriction proteinase: construction of a self-activating enzyme. Chembiochem (2011)

Release Date

2011-03-23

Peptides

Cationic trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cationic trypsin