SMTL ID : 5h8x.1

Crystal structure of the complex MMP-8/BF471 (catechol inhibitor)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.58, G.90, I.91, G.92, D.94 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.58, A:G.90, A:G.92, A:D.94, H2O.1, H2O.3 CA.2: 6 residues within 4Å: Chain A: D.75, G.76, N.78, I.80, D.98, E.101 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.75, A:G.76, A:N.78, A:I.80, A:D.98, A:E.101

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.68, D.70, H.83, H.96 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.68, A:D.70, A:H.83, A:H.96 ZN.4: 5 residues within 4Å: Chain A: H.118, H.122, H.128 Ligands: 5XT.5, 7FY.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.118, A:H.122, A:H.128

1 x 5XT: ~{N}-[3,4-bis(oxidanyl)phenyl]-4-phenyl-benzenesulfonamide(Non-covalent)

5XT.5: 19 residues within 4Å: Chain A: G.79, I.80, L.81, A.82, H.83, A.84, L.114, V.115, H.118, E.119, H.122, L.135, P.138, N.139, Y.140, A.141, R.143 Ligands: ZN.4, 7FY.6 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:L.81, A:L.114, A:V.115, A:V.115, A:H.118, A:L.135, A:Y.140, A:Y.140 Hydrogen bonds: A:L.81, A:A.82, A:A.84, A:A.84 Water bridges: A:H.83, A:P.138, A:P.138 pi-Stacking: A:H.118 pi-Cation interactions: A:H.128

1 x 7FY: ~{N}-[4,5-bis(oxidanylidene)cyclohexen-1-yl]-4-phenyl-benzenesulfonamide(Non-covalent)

7FY.6: 19 residues within 4Å: Chain A: G.79, I.80, L.81, A.82, H.83, L.114, V.115, H.118, E.119, H.122, H.128, L.135, P.138, N.139, Y.140, A.141, R.143 Ligands: ZN.4, 5XT.5 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.80, A:L.81, A:H.83, A:L.114, A:V.115, A:V.115, A:H.118, A:L.135, A:Y.140, A:Y.140 Hydrogen bonds: A:L.81, A:A.82, A:P.138 pi-Stacking: A:H.118

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

MES.7: 8 residues within 4Å: Chain A: A.33, D.36, N.105, F.113, T.145, S.146, N.147, Y.148 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.145 Water bridges: A:D.36, A:N.105, A:N.105, A:F.113 Salt bridges: A:D.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tauro, M. et al., Catechol-based matrix metalloproteinase inhibitors with additional antioxidative activity. J Enzyme Inhib Med Chem (2016)

Release Date

2016-11-02

Peptides

Neutrophil collagenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neutrophil collagenase

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