SMTL ID : 3ms3.1

Crystal structure of Thermolysin in complex with Aniline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.142, A:H.146, A:E.166, H2O.10

4 x CA: CALCIUM ION(Non-covalent)

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

1 x ANL: ANILINE(Non-covalent)

ANL.6: 10 residues within 4Å: Chain A: N.112, A.113, F.130, L.133, V.139, H.142, E.143, I.188, L.202, R.203 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.130, A:L.133, A:V.139, A:I.188, A:L.202 Hydrogen bonds: A:N.112 pi-Stacking: A:H.142

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.7: 5 residues within 4Å: Chain A: I.1, T.2, G.3, Q.31, N.33 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.2

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 6 residues within 4Å: Chain A: Q.158, N.159, E.160, S.161, T.278, S.279 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.160, A:S.161, A:S.161 GOL.9: 4 residues within 4Å: Chain A: G.109, Y.110, N.111, N.112 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.109, A:N.111, A:N.112 Water bridges: A:N.111 GOL.10: 5 residues within 4Å: Chain A: F.114, W.115, E.143, H.146, Y.157 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.115, A:W.115 Water bridges: A:H.146, A:D.150, A:D.150, A:D.150 GOL.11: 5 residues within 4Å: Chain A: G.247, G.248, T.249, V.255, V.256 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.248, A:V.255 Water bridges: A:Q.246, A:T.249, A:V.255 GOL.12: 2 residues within 4Å: Chain A: F.114, N.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.116, A:N.116

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

DMS.13: 3 residues within 4Å: Chain A: H.216, S.218, Y.251 2 PLIP interactions: 2 interactions with chain A pi-Cation interactions: A:H.216, A:Y.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Behnen, J. et al., Experimental and computational active site mapping as a starting point to fragment-based lead discovery. Chemmedchem (2012)

Release Date

2011-05-11

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermolysin

Related Entries With Identical Sequence