SMTL ID : 5n5k.1

Human catalytic MMP-12 in complex with 5-(1,2-dithiolan-3-yl)-N-(3-hydroxypropyl)pentanamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.111, H.115, H.121 Ligands: HAE.6, 8NW.7 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.111, A:H.115, A:H.121, HAE.6 ZN.2: 4 residues within 4Å: Chain A: H.61, D.63, H.76, H.89 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.61, A:D.63, A:H.76, A:H.89

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.51, G.83, I.84, G.85, D.87 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.51, A:G.83, A:G.85, A:D.87, H2O.1, H2O.2 CA.4: 3 residues within 4Å: Chain A: D.17, E.92, E.94 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.17, A:E.92, A:E.92, A:E.94, H2O.5 CA.5: 6 residues within 4Å: Chain A: D.68, G.69, G.71, I.73, D.91, E.94 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.68, A:G.69, A:G.71, A:I.73, A:D.91, A:E.94

1 x HAE: ACETOHYDROXAMIC ACID(Non-covalent)

HAE.6: 9 residues within 4Å: Chain A: I.73, A.75, H.76, H.111, E.112, H.115, H.121 Ligands: ZN.1, 8NW.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.73 Hydrogen bonds: A:A.75

1 x 8NW: 5-[(3~{S})-1,2-dithiolan-3-yl]-~{N}-(3-oxidanylpropyl)pentanamide(Non-covalent)

8NW.7: 16 residues within 4Å: Chain A: G.72, I.73, L.74, A.75, L.107, T.108, H.111, E.112, V.128, F.130, P.131, T.132, Y.133, K.134 Ligands: ZN.1, HAE.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.108 Hydrogen bonds: A:L.74, A:A.75 Water bridges: A:G.72, A:Y.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fragai, M. et al., Lipoyl-Homotaurine Derivative (ADM_12) Reverts Oxaliplatin-Induced Neuropathy and Reduces Cancer Cells Malignancy by Inhibiting Carbonic Anhydrase IX (CAIX). J. Med. Chem. (2017)

Release Date

2017-11-01

Peptides

Macrophage metalloelastase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Macrophage metalloelastase