Zinc in PDB 4m6i: Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717

The structure of Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717, PDB code: 4m6i was solved by D.M.Prigozhin, D.Mavrici, J.P.Huizar, H.J.Vansell, T.Alber, Tb Structuralgenomics Consortium (Tbsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.52 / 2.67
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	125.427, 45.935, 68.050, 90.00, 116.30, 90.00
R / Rfree (%)	19.7 / 22.3

The binding sites of Zinc atom in the Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717 (pdb code 4m6i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717, PDB code: 4m6i:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:76.8 occ:1.00 OE2 A:GLU70 2.0 28.0 1.0 ND1 A:HIS125 2.1 39.1 1.0 NE2 A:HIS35 2.1 46.0 1.0 CE1 A:HIS125 2.9 48.7 1.0 CD2 A:HIS35 3.0 46.0 1.0 CD A:GLU70 3.0 41.8 1.0 CE1 A:HIS35 3.1 46.0 1.0 CG A:HIS125 3.2 37.0 1.0 OE1 A:GLU70 3.4 46.4 1.0 CB A:HIS125 3.6 28.5 1.0 NE2 A:HIS125 4.1 37.4 1.0 ND1 A:HIS35 4.1 46.0 1.0 CG A:HIS35 4.2 46.0 1.0 CD2 A:HIS125 4.2 28.7 1.0 O A:ALA126 4.3 21.9 1.0 CG A:GLU70 4.3 23.3 1.0 CA A:HIS125 4.4 22.9 1.0 OE1 A:GLU200 4.4 31.2 1.0 N A:ALA126 4.6 16.5 1.0

Zinc binding site 2 out of 2 in the Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Reduced, Zn-Bound Form of Mycobacterium Tuberculosis Peptidoglycan Amidase RV3717 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:90.8 occ:1.00 OE2 B:GLU70 2.0 23.5 1.0 NE2 B:HIS35 2.1 88.2 1.0 ND1 B:HIS125 2.1 46.4 1.0 CE1 B:HIS125 2.9 55.3 1.0 CD B:GLU70 3.0 42.6 1.0 CD2 B:HIS35 3.0 74.0 1.0 CE1 B:HIS35 3.1 80.9 1.0 CG B:HIS125 3.2 43.1 1.0 OE1 B:GLU70 3.3 44.0 1.0 CB B:HIS125 3.6 32.6 1.0 NE2 B:HIS125 4.1 39.1 1.0 O B:ALA126 4.1 51.2 1.0 ND1 B:HIS35 4.2 75.8 1.0 CG B:HIS35 4.2 67.1 1.0 CD2 B:HIS125 4.2 37.9 1.0 CG B:GLU70 4.3 26.2 1.0 OE1 B:GLU200 4.4 51.9 1.0 CA B:HIS125 4.5 27.8 1.0 N B:ALA126 4.5 41.5 1.0

D.M.Prigozhin, D.Mavrici, J.P.Huizar, H.J.Vansell, T.Alber. Structural and Biochemical Analyses of Mycobacterium Tuberculosis N-Acetylmuramyl-L-Alanine Amidase RV3717 Point to A Role in Peptidoglycan Fragment Recycling. J.Biol.Chem. V. 288 31549 2013.
ISSN: ISSN 0021-9258
PubMed: 24019530
DOI: 10.1074/JBC.M113.510792