Zinc in PDB 7wnu: Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna

All present enzymatic activity of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna:
3.5.2.6;

The structure of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna, PDB code: 7wnu was solved by J.Li, J.Hu, L.Bao, B.Zhan, Z.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.88 / 3.20
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	92.06, 145.38, 192.1, 90, 90, 90
R / Rfree (%)	18.5 / 24.1

The binding sites of Zinc atom in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna (pdb code 7wnu). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna, PDB code: 7wnu:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:67.6 occ:0.36 OD2 A:ASP170 1.8 61.3 1.0 NE2 A:HIS148 1.8 67.4 1.0 CD2 A:HIS83 2.1 51.3 1.0 CG A:ASP170 2.3 71.5 1.0 NE2 A:HIS81 2.4 62.8 1.0 NE2 A:HIS83 2.4 60.5 1.0 CE1 A:HIS148 2.8 58.5 1.0 CD2 A:HIS148 2.8 58.7 1.0 OD1 A:ASP170 2.9 80.1 1.0 OP2 C:A2 3.2 80.9 1.0 CB A:ASP170 3.3 55.5 1.0 CD2 A:HIS81 3.3 57.8 1.0 CG A:HIS83 3.3 62.4 1.0 CE1 A:HIS81 3.4 63.9 1.0 OP1 C:A2 3.6 79.9 1.0 ZN A:ZN602 3.6 74.1 0.5 CE1 A:HIS83 3.7 54.8 1.0 P C:A2 3.8 101.4 1.0 ND1 A:HIS148 3.9 60.3 1.0 CG A:HIS148 3.9 56.6 1.0 ND1 A:HIS83 4.1 58.1 1.0 CE1 A:HIS375 4.1 58.1 1.0 NE2 A:HIS375 4.2 62.3 1.0 CB A:HIS83 4.3 67.7 1.0 NE2 A:HIS86 4.3 64.8 1.0 CG A:HIS81 4.4 56.9 1.0 ND1 A:HIS81 4.4 56.6 1.0 CA A:ASP170 4.6 53.7 1.0 O5' C:A2 4.6 89.9 1.0 OG A:SER149 4.6 45.7 1.0 CD2 A:HIS86 4.6 57.4 1.0 NE2 A:HIS397 4.7 59.8 1.0 O A:ASP170 5.0 61.6 1.0

Zinc binding site 2 out of 4 in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:74.1 occ:0.54 OP2 C:A2 1.9 80.9 1.0 NE2 A:HIS397 2.2 59.8 1.0 NE2 A:HIS86 2.6 64.8 1.0 OD2 A:ASP170 2.7 61.3 1.0 CE1 A:HIS397 2.8 66.7 1.0 CD2 A:HIS86 3.2 57.4 1.0 P C:A2 3.4 101.4 1.0 CD2 A:HIS397 3.4 58.6 1.0 ZN A:ZN601 3.6 67.6 0.4 CB A:ASP85 3.8 51.9 1.0 CD2 A:HIS83 3.8 51.3 1.0 CE1 A:HIS86 3.8 64.2 1.0 CG A:ASP170 3.9 71.5 1.0 ND1 A:HIS397 4.0 56.9 1.0 O3' C:A1 4.1 94.9 1.0 CE1 A:HIS375 4.2 58.1 1.0 CG A:HIS397 4.4 56.9 1.0 OP1 C:A2 4.4 79.9 1.0 O5' C:A2 4.4 89.9 1.0 NE2 A:HIS81 4.4 62.8 1.0 CG A:HIS86 4.5 57.3 1.0 CB A:HIS83 4.5 67.7 1.0 CG A:HIS83 4.5 62.4 1.0 NE2 A:HIS375 4.7 62.3 1.0 CE1 A:HIS81 4.7 63.9 1.0 OD1 A:ASP170 4.7 80.1 1.0 ND1 A:HIS86 4.7 57.1 1.0 CB A:ASP170 4.8 55.5 1.0 O A:ASP85 4.9 60.1 1.0 O2' C:A1 4.9 85.2 1.0 CA A:ASP85 4.9 56.0 1.0 NE2 A:HIS83 4.9 60.5 1.0 C A:ASP85 4.9 60.9 1.0 ND2 A:ASN30 4.9 60.6 1.0

Zinc binding site 3 out of 4 in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:66.3 occ:0.47 OD2 B:ASP170 2.1 55.3 1.0 NE2 B:HIS397 2.2 59.3 1.0 NE2 B:HIS86 2.2 52.5 1.0 OP2 D:A2 2.2 75.6 1.0 OD1 B:ASP170 2.7 53.0 1.0 CG B:ASP170 2.7 58.0 1.0 CE1 B:HIS397 2.8 55.3 1.0 CD2 B:HIS86 2.9 53.7 1.0 CD2 B:HIS397 3.4 54.2 1.0 CE1 B:HIS86 3.4 50.3 1.0 CD2 B:HIS83 3.5 55.5 1.0 P D:A2 3.6 100.1 1.0 ZN B:ZN602 3.8 58.5 0.3 CB B:ASP85 3.9 67.3 1.0 ND2 B:ASN30 4.0 52.5 1.0 ND1 B:HIS397 4.0 48.8 1.0 OD2 B:ASP85 4.1 92.3 1.0 CG B:HIS86 4.1 52.3 1.0 NE2 B:HIS81 4.1 54.5 1.0 O3' D:A1 4.2 100.7 1.0 CB B:ASP170 4.3 55.6 1.0 CE1 B:HIS81 4.3 51.3 1.0 CG B:HIS397 4.3 48.8 1.0 ND1 B:HIS86 4.3 49.9 1.0 CG B:HIS83 4.4 65.3 1.0 NE2 B:HIS83 4.4 52.3 1.0 OP1 D:A2 4.4 89.7 1.0 CG B:ASP85 4.5 91.8 1.0 CB B:HIS83 4.6 63.2 1.0 NE2 B:HIS375 4.6 61.5 1.0 O5' D:A2 4.7 90.6 1.0

Zinc binding site 4 out of 4 in the Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Mycobacterium Tuberculosis Rnase J Complex with 7NT Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:58.5 occ:0.32 OD2 B:ASP170 1.9 55.3 1.0 NE2 B:HIS83 1.9 52.3 1.0 CE1 B:HIS148 2.1 60.7 1.0 NE2 B:HIS81 2.1 54.5 1.0 CD2 B:HIS83 2.3 55.5 1.0 CB B:ASP170 2.3 55.6 1.0 CG B:ASP170 2.4 58.0 1.0 NE2 B:HIS148 2.7 59.3 1.0 CD2 B:HIS81 2.8 51.0 1.0 CE1 B:HIS83 3.1 55.1 1.0 ND1 B:HIS148 3.1 55.0 1.0 CE1 B:HIS81 3.2 51.3 1.0 CG B:HIS83 3.4 65.3 1.0 OD1 B:ASP170 3.6 53.0 1.0 OP2 D:A2 3.7 75.6 1.0 ND1 B:HIS83 3.8 61.4 1.0 ZN B:ZN601 3.8 66.3 0.5 CD2 B:HIS148 3.8 57.8 1.0 OP1 D:A2 3.8 89.7 1.0 CA B:ASP170 3.9 53.4 1.0 CG B:HIS148 4.0 54.7 1.0 CG B:HIS81 4.0 47.7 1.0 ND1 B:HIS81 4.2 46.5 1.0 P D:A2 4.3 100.1 1.0 NE2 B:HIS375 4.3 61.5 1.0 O B:ASP170 4.5 53.8 1.0 NE2 B:HIS86 4.5 52.5 1.0 N B:ASP170 4.6 52.3 1.0 C B:ASP170 4.6 53.8 1.0 CB B:HIS83 4.6 63.2 1.0 CD2 B:HIS86 4.7 53.7 1.0

J.Li, J.Hu, L.Bao, B.Zhan. Structural Ans Functional Study of Rnase J From Mycobacterium Tuberculosis To Be Published.