SMTL ID : 6dwr.1

Trypsin serine protease modified with the protease inhibitor cyanobenzylsulfonylfluoride

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

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

EDO.1: 9 residues within 4Å: Chain A: S.172, C.173, Q.174, D.176, X.177, V.191, S.192, W.193, C.197 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.172, A:Q.174, A:S.192 Water bridges: A:G.194, A:G.194, A:G.194 EDO.2: 8 residues within 4Å: Chain A: S.44, G.45, I.46, A.67, S.68, K.69, S.70, K.91 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.45, A:S.68 Water bridges: A:I.46, A:A.67 EDO.3: 6 residues within 4Å: Chain A: R.49, I.55, N.56, V.57, V.58, F.64 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.49 Water bridges: A:N.19, A:V.57, A:E.62 EDO.4: 5 residues within 4Å: Chain A: N.77, T.80, N.82, N.83 Ligands: CA.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.82 Water bridges: A:T.80, A:N.83, A:N.83

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 8 residues within 4Å: Chain A: E.52, D.53, N.54, I.55, V.57, V.58, E.59, 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.1, H2O.3 CA.6: 3 residues within 4Å: Chain A: I.30, N.31, I.220 No protein-ligand interaction detected (PLIP) CA.7: 3 residues within 4Å: Chain A: Q.174, G.175, X.177 No protein-ligand interaction detected (PLIP) CA.8: 3 residues within 4Å: Chain A: N.77, T.80 Ligands: EDO.4 No protein-ligand interaction detected (PLIP)

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

SO4.9: 2 residues within 4Å: Chain A: K.69, K.89 5 PLIP interactions: 5 interactions with chain A Water bridges: A:Q.33, A:Q.33, A:S.68 Salt bridges: A:K.69, A:K.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luo, M. et al., Paired Spectroscopic and Crystallographic Studies of Protease Active Sites. Chemistryselect (2019)

Release Date

2019-07-03

Peptides

Cationic trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cationic trypsin