Manganese in PDB 4ls9: Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities

The structure of Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities, PDB code: 4ls9 was solved by D.Kumar, R.Srivastav, A.Grover, B.A.Manjasetty, R.Sharma, B.Taneja, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.59 / 2.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	65.870, 86.090, 66.030, 90.00, 118.37, 90.00
R / Rfree (%)	17.6 / 22.5

The binding sites of Manganese atom in the Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities (pdb code 4ls9). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities, PDB code: 4ls9:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1001 b:30.1 occ:1.00 OD2 A:ASP51 2.2 16.9 1.0 OD1 A:ASP110 2.3 29.5 1.0 OD2 A:ASP185 2.4 28.2 1.0 O A:HOH1228 2.4 34.1 1.0 NE2 A:HIS135 2.4 25.0 1.0 OD2 A:ASP110 2.6 30.4 1.0 O A:HOH1229 2.7 19.3 1.0 CG A:ASP110 2.7 26.8 1.0 CG A:ASP51 3.2 20.7 1.0 CD2 A:HIS135 3.3 25.4 1.0 CG A:ASP185 3.4 28.0 1.0 CE1 A:HIS135 3.5 24.8 1.0 CB A:ASP51 3.5 17.7 1.0 OD1 A:ASP185 3.8 30.4 1.0 CB A:ASP110 4.1 21.8 1.0 CE1 A:HIS136 4.2 28.9 1.0 OD1 A:ASP51 4.3 22.8 1.0 OG1 A:THR155 4.4 19.0 1.0 N A:THR155 4.4 15.7 1.0 CG A:HIS135 4.4 24.4 1.0 ND1 A:HIS135 4.5 26.1 1.0 CA A:SER154 4.7 17.1 1.0 CB A:ASP185 4.7 19.9 1.0 ND1 A:HIS136 4.8 29.5 1.0 OD2 A:ASP49 4.8 37.2 1.0 O A:HOH1125 4.9 37.0 1.0 CB A:THR155 5.0 19.4 1.0

Manganese binding site 2 out of 2 in the Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of Mycobacterial Nrna Homolog Reveals Multifunctional Nuclease Activities within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn1001 b:36.1 occ:1.00 OD2 B:ASP51 2.1 14.4 1.0 OD2 B:ASP185 2.3 30.5 1.0 NE2 B:HIS135 2.4 21.4 1.0 O B:HOH1191 2.6 26.0 1.0 OD2 B:ASP110 2.6 33.7 1.0 OD1 B:ASP110 2.7 30.0 1.0 O B:HOH1109 2.8 38.0 1.0 CG B:ASP110 2.9 29.3 1.0 CG B:ASP51 3.1 22.2 1.0 CD2 B:HIS135 3.3 22.7 1.0 CG B:ASP185 3.4 25.6 1.0 CE1 B:HIS135 3.4 21.2 1.0 CB B:ASP51 3.5 15.9 1.0 OD1 B:ASP185 3.7 27.4 1.0 OD1 B:ASP51 4.3 22.3 1.0 N B:THR155 4.3 15.4 1.0 CB B:ASP110 4.4 21.7 1.0 OG1 B:THR155 4.5 26.6 1.0 CG B:HIS135 4.5 22.1 1.0 ND1 B:HIS135 4.5 22.5 1.0 CA B:SER154 4.6 15.2 1.0 CB B:ASP185 4.7 19.9 1.0 O B:HOH1199 4.8 38.6 1.0 CE1 B:HIS136 4.8 36.1 1.0 OD2 B:ASP49 4.9 38.4 1.0 C B:SER154 4.9 21.1 1.0 CB B:THR155 4.9 24.0 1.0 CA B:ASP51 5.0 15.4 1.0

R.Srivastav, D.Kumar, A.Grover, A.Singh, B.A.Manjasetty, R.Sharma, B.Taneja. Unique Subunit Packing in Mycobacterial Nanornase Leads to Alternate Substrate Recognitions in Dhh Phosphodiesterases Nucleic Acids Res. V. 42 7894 2014.
ISSN: ISSN 0305-1048
PubMed: 24878921
DOI: 10.1093/NAR/GKU425