SMTL ID : 8zm4.1

Crystal structure of Thermolysin (Dose I)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 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.11

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.5 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: 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.11 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.3, H2O.5, H2O.12 CA.5: 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.4, H2O.4

1 x ILE: ISOLEUCINE(Non-covalent)

ILE.6: 9 residues within 4Å: Chain A: N.112, A.113, L.133, H.142, E.143, L.202, R.203, H.231 Ligands: LYS.7 7 PLIP interactions: 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:L.133, A:H.142, A:L.202, K.7 Hydrogen bonds: A:E.143, A:R.203, A:R.203

1 x LYS: LYSINE(Non-covalent)

LYS.7: 6 residues within 4Å: Chain A: N.111, N.112, F.130, R.203, H.231 Ligands: ILE.6 10 PLIP interactions: 3 Ligand-Ligand interactions, 7 interactions with chain A Hydrophobic interactions: I.6 Hydrogen bonds: K.7, A:N.111, A:N.112, A:N.112, A:N.112 Salt bridges: K.7, A:H.231 Water bridges: A:H.231, A:H.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nam, K.H., Crystal structure of Thermolysin (Dose I). To Be Published

Release Date

2024-06-05

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermolysin

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