SMTL ID : 1s6f.1

PORCINE TRYPSIN COVALENT COMPLEX WITH BORATE AND GUANIDINE-3 INHIBITOR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 8 residues within 4Å: Chain A: E.52, H.53, N.54, I.55, V.57, L.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.3, H2O.11

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

SO4.2: 3 residues within 4Å: Chain A: R.49, F.64 Ligands: EDO.7 5 PLIP interactions: 5 interactions with chain A Water bridges: A:N.19, A:R.49, A:R.49, A:R.49 Salt bridges: A:R.49 SO4.3: 3 residues within 4Å: Chain A: N.77, N.79, T.80 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.77, A:N.79

1 x SBP: [3-(1,3,2-DIOXABOROLAN-2-YLOXY)PROPYL]GUANIDINE(Covalent)

SBP.4: 21 residues within 4Å: Chain A: F.24, C.25, H.40, C.41, D.171, S.172, C.173, Q.174, G.175, D.176, S.177, V.191, S.192, W.193, G.194, G.196, C.197, A.198, G.204, V.205, Y.206 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:H.40, A:S.172, A:S.172, A:G.175, A:D.176, A:S.177, A:G.196, A:G.196 Water bridges: A:G.194, A:G.194, A:V.205 Salt bridges: A:D.171

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

EDO.5: 2 residues within 4Å: Chain A: G.128, S.129 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.128 Water bridges: A:G.128, A:G.128 EDO.6: 4 residues within 4Å: Chain A: Y.152, Q.155, W.193, Y.195 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.155 EDO.7: 8 residues within 4Å: Chain A: S.17, N.19, S.22, H.23, R.49, I.55, D.56 Ligands: SO4.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.23, A:D.56 Water bridges: A:N.19 EDO.8: 3 residues within 4Å: Chain A: G.78, N.79, L.81 No protein-ligand interaction detected (PLIP) EDO.9: 4 residues within 4Å: Chain A: S.144, D.145, S.146, S.147 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.144, A:D.145 EDO.10: 6 residues within 4Å: Chain A: I.30, N.31, L.105, I.216, Q.217, I.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.31, A:Q.217 Water bridges: A:I.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Transue, T.R. et al., X-ray and NMR characterization of covalent complexes of trypsin, borate, and alcohols. Biochemistry (2004)

Release Date

2004-03-16

Peptides

Trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Trypsin

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