SMTL ID : 3for.1

Thermolysin Complexed with BNPA (2-Benzyl-3-Nitro Propanoic Acid Amide)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.138, E.177, D.185, E.187, E.190 Ligands: CA.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.177, A:E.177, A:D.185, A:E.190, A:E.190 CA.2: 5 residues within 4Å: Chain A: E.177, N.183, D.185, E.190 Ligands: CA.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.177, A:N.183, A:D.185, A:E.190, H2O.8 CA.3: 3 residues within 4Å: Chain A: D.57, D.59, Q.61 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.57, A:D.59, A:Q.61, H2O.2, H2O.3 CA.4: 4 residues within 4Å: Chain A: Y.193, T.194, I.197, D.200 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.193, A:T.194, A:I.197, A:D.200, H2O.1

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166 Ligands: ZNP.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.142, A:H.146, A:E.166, A:E.166

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

DMS.6: 3 residues within 4Å: Chain A: H.216, S.218, Y.251 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.218 pi-Cation interactions: A:H.216, A:Y.251

1 x ZNP: (2R)-2-benzyl-3-nitropropanamide(Non-covalent)

ZNP.7: 13 residues within 4Å: Chain A: N.112, A.113, V.139, H.142, E.143, H.146, Y.157, E.166, I.188, L.202, R.203, H.231 Ligands: ZN.5 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.139, A:I.188, A:L.202 Hydrogen bonds: A:N.112, A:H.231 pi-Stacking: A:H.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S.-F. et al., Nitro as ZBG in the inhibition of Thermolysin. To be Published

Release Date

2010-01-12

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermolysin

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