SMTL ID : 3tt4.1

Human MMP8 in complex with L-glutamate motif inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.64, D.66, H.79, H.92 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.64, A:D.66, A:H.79, A:H.92 ZN.2: 4 residues within 4Å: Chain A: H.114, H.118, H.124 Ligands: E1S.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.114, A:H.118, A:H.124

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.71, G.72, N.74, I.76, D.94, E.97 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.71, A:G.72, A:N.74, A:I.76, A:D.94, A:E.97 CA.4: 5 residues within 4Å: Chain A: D.54, G.86, I.87, G.88, D.90 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.54, A:G.86, A:G.88, A:D.90, H2O.2, H2O.2

1 x E1S: N~2~-{3-[4-(5-methylthiophen-2-yl)phenyl]propanoyl}-L-alpha-glutamine(Non-covalent)

E1S.5: 19 residues within 4Å: Chain A: G.75, I.76, L.77, A.78, L.110, H.114, E.115, H.118, H.124, A.130, L.131, Y.133, P.134, N.135, Y.136, A.137, R.139, Y.144 Ligands: ZN.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.110, A:H.114, A:L.131, A:Y.136, A:R.139 Hydrogen bonds: A:G.75, A:L.77, A:A.78, A:A.78 Water bridges: A:P.134 Salt bridges: A:H.114, A:H.118, A:H.124 pi-Stacking: A:H.114

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 8 residues within 4Å: Chain A: R.28, A.29, D.32, F.109, T.141, S.142, N.143, Y.144 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.32, A:T.141, A:N.143, A:Y.144 Water bridges: A:A.29, A:N.101, A:N.101, A:F.109, A:F.109 Salt bridges: A:D.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Devel, L. et al., Simple pseudo-dipeptides with a P2' glutamate: a novel inhibitor family of matrix metalloproteases and other metzincins. J.Biol.Chem. (2012)

Release Date

2012-06-20

Peptides

Neutrophil collagenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neutrophil collagenase