SMTL ID : 4gr8.1

Crystal structure of the catalytic domain of Human MMP12 in complex with selective phosphinic inhibitor RXP470C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.108, H.112, H.118 Ligands: R4C.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.108, A:H.112, A:H.118 ZN.2: 4 residues within 4Å: Chain A: H.58, D.60, H.73, H.86 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.58, A:D.60, A:H.73, A:H.86

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: D.48, G.80, G.82, D.84 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.48, A:G.80, A:G.82, A:D.84, H2O.1, H2O.2 CA.4: 3 residues within 4Å: Chain A: D.14, E.89, E.91 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.14, A:E.89, A:E.89, H2O.1, H2O.1 CA.5: 6 residues within 4Å: Chain A: D.65, G.66, G.68, I.70, D.88, E.91 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.65, A:G.66, A:G.68, A:I.70, A:D.88, A:E.91

1 x R4C: N-{(2S)-3-[(R)-(4-bromophenyl)(hydroxy)phosphoryl]-2-[(3-phenyl-1,2-oxazol-5-yl)methyl]propanoyl}-L-alanyl-L-alaninamid e(Non-covalent)

R4C.6: 19 residues within 4Å: Chain A: G.69, I.70, L.71, A.72, H.73, L.104, T.105, H.108, E.109, H.112, H.118, A.124, V.125, F.127, P.128, T.129, Y.130 Ligands: ZN.1, IMD.7 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.71, A:H.73, A:H.108, A:Y.130 Hydrogen bonds: A:G.69, A:L.71, A:A.72, A:P.128, A:Y.130 Water bridges: A:G.69, A:G.69 pi-Stacking: A:H.108

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.7: 5 residues within 4Å: Chain A: H.62, H.73, A.74, F.75 Ligands: R4C.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.62, A:A.74 pi-Stacking: A:H.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Czarny, B. et al., Molecular determinants of a selective matrix metalloprotease-12 inhibitor: insights from crystallography and thermodynamic studies. J.Med.Chem. (2013)

Release Date

2013-02-06

Peptides

Macrophage metalloelastase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Macrophage metalloelastase