SMTL ID : 4dpe.2 (1 other biounit)

Structure of MMP3 complexed with a platinum-based inhibitor.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.119, H.123, H.129 Ligands: NGH.13 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.119, A:H.123, A:H.129 ZN.2: 4 residues within 4Å: Chain A: H.69, D.71, H.84, H.97 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.69, A:D.71, A:H.84, A:H.97

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.76, G.77, G.79, V.81, D.99, E.102 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.76, A:G.77, A:G.79, A:V.81, A:D.99, A:E.102 CA.4: 5 residues within 4Å: Chain A: D.59, G.91, I.92, N.93, D.95 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.59, A:G.91, A:N.93, A:D.95, H2O.1, H2O.1 CA.5: 3 residues within 4Å: Chain A: D.25, D.100, E.102 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.25, A:D.100, A:D.100, A:E.102, H2O.1

5 x PT: PLATINUM (II) ION(Non-covalent)(Non-functional Binders)

PT.6: 2 residues within 4Å: Chain A: E.57, M.61 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.57, A:E.57, H2O.4, H2O.4 PT.7: 3 residues within 4Å: Chain A: H.142 Ligands: CL.11, CL.12 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.142, H2O.4 PT.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PT.9: 2 residues within 4Å: Chain A: R.149, R.151 No protein-ligand interaction detected (PLIP) PT.10: 1 residues within 4Å: Chain A: K.12 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 5 residues within 4Å: Chain A: H.142, S.143, L.144 Ligands: PT.7, CL.12 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain A: S.143, L.144 Ligands: PT.7, CL.11 Ligand excluded by PLIP

1 x NGH: N-ISOBUTYL-N-[4-METHOXYPHENYLSULFONYL]GLYCYL HYDROXAMIC ACID(Non-covalent)

NGH.13: 15 residues within 4Å: Chain A: N.80, V.81, L.82, A.83, L.115, V.116, H.119, E.120, H.123, H.129, L.136, P.139, L.140, Y.141 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.116, A:Y.141 Hydrogen bonds: A:L.82, A:A.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Belviso, B.D. et al., Structure of matrix metalloproteinase-3 with a platinum-based inhibitor. Chem.Commun.(Camb.) (2013)

Release Date

2013-02-20

Peptides

Stromelysin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Stromelysin-1

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