SMTL ID : 4h2e.1 (1 other biounit)

Crystal structure of an MMP twin inhibitor complexing two MMP-9 catalytic domains

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.121, H.125, H.131 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.121, A:H.125, A:H.131 ZN.2: 4 residues within 4Å: Chain A: H.70, D.72, H.85, H.98 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.70, A:D.72, A:D.72, A:H.85, A:H.98

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.60, G.90, G.92, Q.94, D.96 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.60, A:G.92, A:Q.94, A:D.96 CA.4: 6 residues within 4Å: Chain A: D.77, G.78, D.80, L.82, D.100, E.103 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.78, A:D.80, A:L.82, A:D.100, A:E.103

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 2 residues within 4Å: Chain A: H.152, K.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.152 PEG.6: 1 residues within 4Å: Chain A: E.136 1 PLIP interactions: 1 interactions with chain A Water bridges: A:P.135 PEG.7: 1 residues within 4Å: Ligands: PEG.8 No protein-ligand interaction detected (PLIP) PEG.8: 3 residues within 4Å: Chain A: D.72, Y.74 Ligands: PEG.7 No protein-ligand interaction detected (PLIP) PEG.9: 5 residues within 4Å: Chain A: A.68, E.69, F.76 Ligands: ACT.12, BCN.14 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.69, A:F.76 PEG.10: 2 residues within 4Å: Chain A: N.22, V.67 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.22

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ACT.12: 1 residues within 4Å: Ligands: PEG.9 No protein-ligand interaction detected (PLIP) ACT.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x BCN: BICINE(Non-covalent)

BCN.14: 2 residues within 4Å: Chain A: D.77 Ligands: PEG.9 No protein-ligand interaction detected (PLIP) BCN.15: 1 residues within 4Å: Chain A: R.144 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.144 Water bridges: A:E.147, A:E.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Antoni, C. et al., Crystallization of bi-functional ligand protein complexes. J.Struct.Biol. (2013)

Release Date

2013-04-24

Peptides

Matrix metalloproteinase-9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Matrix metalloproteinase-9

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