Magnesium in PDB 6ar3: Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met))

The structure of Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met)), PDB code: 6ar3 was solved by J.L.Stamos, A.M.Lentzsch, A.M.Lambowitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.93 / 3.41
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	179.527, 108.966, 72.517, 90.00, 113.78, 90.00
R / Rfree (%)	27.3 / 32.4

The binding sites of Magnesium atom in the Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met)) (pdb code 6ar3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met)), PDB code: 6ar3:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met))


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met)) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:89.5 occ:1.00 OD2 A:ASP138 2.2 99.0 1.0 O1B A:DTP501 2.2 80.5 1.0 O1A A:DTP501 2.2 83.6 1.0 O1G A:DTP501 2.2 90.6 1.0 O A:LEU139 2.2 90.4 1.0 OD2 A:ASP223 2.2 77.0 1.0 PB A:DTP501 3.3 76.2 1.0 CG A:ASP138 3.3 0.8 1.0 CG A:ASP223 3.4 73.4 1.0 C A:LEU139 3.4 94.9 1.0 PG A:DTP501 3.4 88.5 1.0 PA A:DTP501 3.5 83.1 1.0 O3A A:DTP501 3.7 79.9 1.0 O3B A:DTP501 3.7 80.3 1.0 OD1 A:ASP138 3.8 0.7 1.0 N A:LEU139 3.8 93.9 1.0 OD1 A:ASP223 3.8 74.6 1.0 O2G A:DTP501 4.1 88.2 1.0 CA A:LEU139 4.1 95.4 1.0 CB A:PHE142 4.4 72.4 1.0 C5' A:DTP501 4.4 82.7 1.0 O5' A:DTP501 4.4 81.7 1.0 NZ A:LYS258 4.4 99.4 1.0 N A:PHE142 4.5 75.5 1.0 N A:GLU140 4.5 99.3 1.0 N A:LYS141 4.5 86.3 1.0 CB A:ASP138 4.6 0.8 1.0 CB A:ASP223 4.6 72.2 1.0 O2B A:DTP501 4.6 78.6 1.0 C A:ASP138 4.7 96.5 1.0 CB A:LEU139 4.7 97.5 1.0 O2A A:DTP501 4.7 81.2 1.0 O3G A:DTP501 4.8 93.0 1.0 CA A:GLU140 4.8 99.7 1.0 C A:GLU140 4.9 94.9 1.0

Magnesium binding site 2 out of 2 in the Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met))


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Se-Met)) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:0.6 occ:1.00 OD2 D:ASP138 2.1 0.1 1.0 O1B D:DTP501 2.1 87.7 1.0 O D:LEU139 2.2 0.0 1.0 O2A D:DTP501 2.2 90.5 1.0 O1G D:DTP501 2.2 0.3 1.0 OD2 D:ASP223 2.2 0.2 1.0 PB D:DTP501 3.2 82.2 1.0 CG D:ASP138 3.2 0.8 1.0 C D:LEU139 3.3 0.8 1.0 PA D:DTP501 3.3 87.0 1.0 CG D:ASP223 3.3 0.1 1.0 PG D:DTP501 3.5 98.9 1.0 O3A D:DTP501 3.6 84.5 1.0 O3B D:DTP501 3.6 90.2 1.0 N D:LEU139 3.6 0.8 1.0 OD1 D:ASP138 3.7 0.1 1.0 OD1 D:ASP223 3.9 0.5 1.0 CA D:LEU139 4.0 0.8 1.0 O5' D:DTP501 4.3 89.1 1.0 C5' D:DTP501 4.3 89.3 1.0 CB D:PHE142 4.3 84.2 1.0 N D:GLU140 4.4 0.2 1.0 CB D:ASP138 4.5 0.4 1.0 O1A D:DTP501 4.5 85.9 1.0 N D:PHE142 4.5 83.4 1.0 O2G D:DTP501 4.5 0.6 1.0 O3G D:DTP501 4.5 94.0 1.0 O2B D:DTP501 4.5 85.4 1.0 N D:LYS141 4.5 92.5 1.0 C D:ASP138 4.5 0.2 1.0 NZ D:LYS258 4.5 0.1 1.0 CB D:LEU139 4.6 0.6 1.0 CB D:ASP223 4.6 97.6 1.0 CA D:GLU140 4.8 98.3 1.0 C D:GLU140 4.9 97.5 1.0 CA D:ASP138 4.9 0.6 1.0

J.L.Stamos, A.M.Lentzsch, A.M.Lambowitz. Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications. Mol. Cell V. 68 926 2017.
ISSN: ISSN 1097-4164
PubMed: 29153391
DOI: 10.1016/J.MOLCEL.2017.10.024