SMTL ID : 2a31.1

Trypsin in complex with borate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 9 residues within 4Å: Chain A: E.52, H.53, N.54, I.55, V.57, L.58, E.59, E.62 Ligands: MG.2 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.13

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 9 residues within 4Å: Chain A: E.52, H.53, N.54, I.55, V.57, L.58, E.59, E.62 Ligands: CA.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.52, A:N.54, A:E.62, H2O.3, H2O.13 MG.3: 2 residues within 4Å: Chain A: D.56, Y.131 No protein-ligand interaction detected (PLIP) MG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 3 residues within 4Å: Chain A: S.150, S.151, N.201 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.150

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

SO4.6: 2 residues within 4Å: Chain A: R.49, F.64 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.19, A:R.49 Salt bridges: A:R.49

2 x BO4: BORATE ION(Covalent)(Non-covalent)

BO4.7: 5 residues within 4Å: Chain A: L.143, S.144, S.146, S.147, L.166 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.144 BO4.9: 4 residues within 4Å: Chain A: A.112, S.144, D.145, S.146 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.145, A:S.146

1 x PG3: GUANIDINE-3-PROPANOL(Non-covalent)

PG3.8: 17 residues within 4Å: Chain A: H.40, D.171, S.172, C.173, Q.174, D.176, S.177, V.191, S.192, W.193, G.194, Y.195, G.196, C.197, A.198, G.204, Y.206 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.191 Hydrogen bonds: A:H.40, A:S.172, A:S.172, A:Q.174, A:S.192, A:G.196 Water bridges: A:W.193, A:W.193, A:G.194, A:G.194, A:Y.195 Salt bridges: A:D.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Transue, T.R. et al., NMR and crystallographic characterization of adventitious borate binding by trypsin. Bioconjug.Chem. (2006)

Release Date

2006-07-04

Peptides

Trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Trypsin

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