Zinc in PDB 4ppz: Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58

All present enzymatic activity of Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58:
3.5.1.18;

The structure of Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58, PDB code: 4ppz was solved by B.Nocek, R.Holz, W.F.Anderson, A.Joachimiak, Center For Structuralgenomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.38 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	116.963, 151.655, 55.464, 90.00, 90.00, 90.00
R / Rfree (%)	17.4 / 20.8

The binding sites of Zinc atom in the Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58 (pdb code 4ppz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58, PDB code: 4ppz:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:21.1 occ:1.00 OD1 A:ASP101 2.0 21.3 1.0 O A:HOH819 2.0 19.2 1.0 NE2 A:HIS68 2.1 24.6 1.0 OE1 A:GLU164 2.1 20.7 1.0 OE2 A:GLU164 2.7 22.1 1.0 CD A:GLU164 2.7 19.6 1.0 CG A:ASP101 2.8 22.6 1.0 CE1 A:HIS68 2.9 22.6 1.0 OD2 A:ASP101 3.1 29.4 1.0 CD2 A:HIS68 3.1 23.3 1.0 ZN A:ZN602 3.4 25.3 1.0 OE1 A:GLU135 3.5 30.8 1.0 OE2 A:GLU136 3.5 23.3 1.0 ND1 A:HIS68 4.1 22.4 1.0 CD A:GLU135 4.1 32.6 1.0 CB A:ASP101 4.2 21.9 1.0 CG A:GLU164 4.2 21.9 1.0 CG A:HIS68 4.2 20.9 1.0 CD A:GLU136 4.3 25.2 1.0 CB A:MET102 4.4 22.8 1.0 O A:HOH841 4.4 37.3 1.0 CG A:MET102 4.4 21.8 1.0 SD A:MET102 4.5 27.7 1.0 OE2 A:GLU135 4.5 33.2 1.0 CA A:ASP101 4.7 21.6 1.0 OE1 A:GLU136 4.7 24.6 1.0 C A:ASP101 4.7 21.4 1.0 CD A:PRO165 4.7 20.3 1.0 CB A:GLU164 4.8 20.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:25.3 occ:1.00 OD2 A:ASP101 1.9 29.4 1.0 OE2 A:GLU136 2.1 23.3 1.0 NE2 A:HIS350 2.1 29.1 1.0 O A:HOH819 2.1 19.2 1.0 O A:HOH841 2.3 37.3 1.0 OE1 A:GLU136 2.5 24.6 1.0 CD A:GLU136 2.6 25.2 1.0 CE1 A:HIS350 2.9 30.5 1.0 CG A:ASP101 3.1 22.6 1.0 CD2 A:HIS350 3.2 27.6 1.0 ZN A:ZN601 3.4 21.1 1.0 OD1 A:ASP101 3.6 21.3 1.0 O A:HOH761 4.0 28.9 1.0 ND1 A:HIS350 4.1 33.2 1.0 CG A:GLU136 4.1 27.1 1.0 OE1 A:GLU135 4.1 30.8 1.0 CG A:HIS350 4.3 27.5 1.0 CB A:ASP101 4.3 21.9 1.0 NE2 A:HIS68 4.6 24.6 1.0 O A:HOH817 4.7 43.6 1.0 CE1 A:HIS68 4.7 22.6 1.0 CD1 A:ILE349 4.7 37.0 1.0 CG1 A:VAL72 4.9 31.5 1.0 OE1 A:GLU164 5.0 20.7 1.0

B.Nocek, R.Holz, W.F.Anderson, A.Joachimiak. Crystal Structure of Zinc-Bound Succinyl-Diaminopimelate Desuccinylase From Neisseria Meningitidis MC58 To Be Published.