Zinc in PDB 1mmp: Matrilysin Complexed with Carboxylate Inhibitor

All present enzymatic activity of Matrilysin Complexed with Carboxylate Inhibitor:
3.4.24.23;

The structure of Matrilysin Complexed with Carboxylate Inhibitor, PDB code: 1mmp was solved by M.F.Browner, W.W.Smith, A.L.Castelhano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 2.30
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	62.000, 62.000, 175.700, 90.00, 90.00, 120.00
R / Rfree (%)	18 / n/a

The structure of Matrilysin Complexed with Carboxylate Inhibitor also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Zinc atom in the Matrilysin Complexed with Carboxylate Inhibitor (pdb code 1mmp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Matrilysin Complexed with Carboxylate Inhibitor, PDB code: 1mmp:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Matrilysin Complexed with Carboxylate Inhibitor


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Matrilysin Complexed with Carboxylate Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:14.2 occ:1.00 O2 A:RSS269 2.0 10.3 1.0 NE2 A:HIS228 2.1 13.5 1.0 NE2 A:HIS218 2.1 10.3 1.0 NE2 A:HIS222 2.2 10.4 1.0 O1 A:RSS269 2.7 11.3 1.0 C1 A:RSS269 2.8 10.7 1.0 CE1 A:HIS228 3.0 14.2 1.0 CD2 A:HIS218 3.1 10.9 1.0 CD2 A:HIS222 3.1 11.4 1.0 CE1 A:HIS218 3.1 12.1 1.0 CE1 A:HIS222 3.1 12.4 1.0 CD2 A:HIS228 3.1 12.3 1.0 O A:HOH318 4.0 20.9 1.0 ND1 A:HIS228 4.1 12.6 1.0 C2 A:RSS269 4.2 10.1 1.0 CG A:HIS228 4.2 13.0 1.0 ND1 A:HIS218 4.2 10.1 1.0 ND1 A:HIS222 4.2 11.3 1.0 CG A:HIS218 4.2 10.5 1.0 CG A:HIS222 4.2 10.5 1.0 C3 A:RSS269 4.5 10.7 1.0 CE A:MET236 4.6 5.7 1.0 OE2 A:GLU219 4.7 11.6 1.0 OE1 A:GLU219 4.9 13.4 1.0 C13 A:RSS269 4.9 11.4 1.0

Zinc binding site 2 out of 4 in the Matrilysin Complexed with Carboxylate Inhibitor


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Matrilysin Complexed with Carboxylate Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2 b:12.0 occ:1.00 NE2 A:HIS168 2.0 11.4 1.0 OD2 A:ASP170 2.0 28.6 1.0 NE2 A:HIS183 2.0 11.6 1.0 ND1 A:HIS196 2.1 10.7 1.0 CG A:ASP170 2.7 27.1 1.0 OD1 A:ASP170 2.7 26.8 1.0 CD2 A:HIS168 2.9 12.8 1.0 CE1 A:HIS183 2.9 12.6 1.0 CE1 A:HIS168 3.0 11.1 1.0 CE1 A:HIS196 3.0 12.1 1.0 CD2 A:HIS183 3.0 11.6 1.0 CG A:HIS196 3.2 10.2 1.0 CB A:HIS196 3.6 7.1 1.0 CB A:ASP170 4.0 25.8 1.0 O A:TYR172 4.0 21.0 1.0 ND1 A:HIS183 4.1 12.1 1.0 CG A:HIS168 4.1 14.6 1.0 ND1 A:HIS168 4.1 12.1 1.0 CG A:HIS183 4.1 12.8 1.0 NE2 A:HIS196 4.2 13.2 1.0 CD2 A:HIS196 4.4 12.3 1.0 CZ A:PHE185 4.4 13.3 1.0 CE1 A:PHE185 4.5 11.9 1.0 CE2 A:PHE174 4.5 8.0 1.0 CB A:TYR172 4.6 28.8 1.0 CZ A:PHE174 4.7 7.3 1.0 O A:HOH316 4.9 13.1 1.0 C A:TYR172 5.0 22.0 1.0

Zinc binding site 3 out of 4 in the Matrilysin Complexed with Carboxylate Inhibitor


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Matrilysin Complexed with Carboxylate Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1 b:14.6 occ:1.00 O2 B:RSS269 2.0 14.1 1.0 NE2 B:HIS218 2.1 10.8 1.0 NE2 B:HIS228 2.1 12.1 1.0 NE2 B:HIS222 2.2 11.1 1.0 O1 B:RSS269 2.7 11.5 1.0 C1 B:RSS269 2.7 12.0 1.0 CE1 B:HIS228 3.0 11.8 1.0 CD2 B:HIS218 3.1 11.4 1.0 CD2 B:HIS222 3.1 12.6 1.0 CE1 B:HIS218 3.1 12.5 1.0 CE1 B:HIS222 3.1 10.2 1.0 CD2 B:HIS228 3.1 10.2 1.0 ND1 B:HIS228 4.1 10.7 1.0 C2 B:RSS269 4.1 11.1 1.0 O B:HOH353 4.2 21.7 1.0 CG B:HIS228 4.2 11.6 1.0 O B:HOH352 4.2 18.6 1.0 CG B:HIS218 4.2 9.2 1.0 ND1 B:HIS218 4.2 10.4 1.0 ND1 B:HIS222 4.2 10.6 1.0 CG B:HIS222 4.2 11.2 1.0 C3 B:RSS269 4.5 10.1 1.0 CE B:MET236 4.6 8.8 1.0 OE2 B:GLU219 4.7 14.2 1.0 C13 B:RSS269 4.9 7.2 1.0 OE1 B:GLU219 4.9 10.1 1.0

Zinc binding site 4 out of 4 in the Matrilysin Complexed with Carboxylate Inhibitor


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Matrilysin Complexed with Carboxylate Inhibitor within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2 b:12.4 occ:1.00 NE2 B:HIS168 2.0 11.4 1.0 OD2 B:ASP170 2.0 28.4 1.0 NE2 B:HIS183 2.1 13.2 1.0 ND1 B:HIS196 2.2 12.7 1.0 CG B:ASP170 2.7 27.3 1.0 OD1 B:ASP170 2.7 25.7 1.0 CD2 B:HIS168 2.9 11.9 1.0 CE1 B:HIS183 3.0 11.9 1.0 CE1 B:HIS168 3.0 13.2 1.0 CE1 B:HIS196 3.0 11.9 1.0 CD2 B:HIS183 3.1 10.9 1.0 CG B:HIS196 3.2 10.8 1.0 CB B:HIS196 3.7 8.8 1.0 CB B:ASP170 4.0 27.1 1.0 O B:TYR172 4.0 22.4 1.0 CG B:HIS168 4.0 15.0 1.0 ND1 B:HIS168 4.1 15.2 1.0 ND1 B:HIS183 4.1 9.4 1.0 CG B:HIS183 4.2 10.6 1.0 NE2 B:HIS196 4.2 11.0 1.0 CD2 B:HIS196 4.4 11.4 1.0 CZ B:PHE185 4.4 9.8 1.0 CE1 B:PHE185 4.5 13.2 1.0 CB B:TYR172 4.5 29.3 1.0 CE2 B:PHE174 4.6 8.5 1.0 CZ B:PHE174 4.8 7.9 1.0 C B:TYR172 5.0 22.9 1.0 O B:HOH347 5.0 11.8 1.0

M.F.Browner, W.W.Smith, A.L.Castelhano. Matrilysin-Inhibitor Complexes: Common Themes Among Metalloproteases. Biochemistry V. 34 6602 1995.
ISSN: ISSN 0006-2960
PubMed: 7756291
DOI: 10.1021/BI00020A004