Magnesium in PDB 6ar1: Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Nat))

The structure of Structure of A Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications (Rt/Duplex (Nat)), PDB code: 6ar1 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)	47.53 / 3.01
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	179.151, 95.052, 71.567, 90.00, 113.55, 90.00
R / Rfree (%)	21.6 / 25.5

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 (Nat)) (pdb code 6ar1). 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 (Nat)), PDB code: 6ar1:
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 (Nat))


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 (Nat)) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:80.0 occ:1.00 OD2 A:ASP223 2.2 74.3 1.0 O1G A:DTP501 2.2 79.5 1.0 O1B A:DTP501 2.2 78.0 1.0 OD2 A:ASP138 2.2 86.3 1.0 O1A A:DTP501 2.2 73.2 1.0 O A:LEU139 2.2 85.7 1.0 PB A:DTP501 3.2 76.4 1.0 PG A:DTP501 3.3 80.0 1.0 CG A:ASP138 3.3 87.7 1.0 CG A:ASP223 3.3 71.3 1.0 C A:LEU139 3.4 89.0 1.0 PA A:DTP501 3.4 70.3 1.0 O3B A:DTP501 3.5 78.6 1.0 O3A A:DTP501 3.6 72.4 1.0 OD1 A:ASP138 3.8 87.3 1.0 N A:LEU139 3.8 89.0 1.0 OD1 A:ASP223 3.9 69.3 1.0 O2G A:DTP501 4.0 82.8 1.0 CA A:LEU139 4.1 90.1 1.0 C5' A:DTP501 4.3 68.3 1.0 O5' A:DTP501 4.3 68.3 1.0 NZ A:LYS258 4.5 88.4 1.0 N A:GLU140 4.5 91.4 1.0 CB A:ASP223 4.5 71.9 1.0 CB A:ASP138 4.5 88.9 1.0 O3G A:DTP501 4.5 79.4 1.0 CB A:PHE142 4.5 82.7 1.0 N A:LYS141 4.6 88.3 1.0 O2B A:DTP501 4.6 77.0 1.0 C A:ASP138 4.6 91.1 1.0 O2A A:DTP501 4.6 68.5 1.0 N A:PHE142 4.7 84.8 1.0 CA A:GLU140 4.7 91.8 1.0 CB A:LEU139 4.8 89.9 1.0 C A:GLU140 4.9 90.9 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 (Nat))


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 (Nat)) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg503 b:99.1 occ:1.00 O1G D:DTP501 2.2 0.0 1.0 OD2 D:ASP223 2.2 91.6 1.0 O2A D:DTP501 2.2 92.4 1.0 O D:LEU139 2.2 82.7 1.0 O1B D:DTP501 2.2 98.6 1.0 OD2 D:ASP138 2.2 83.0 1.0 PB D:DTP501 3.1 97.5 1.0 PG D:DTP501 3.2 0.7 1.0 PA D:DTP501 3.2 89.6 1.0 CG D:ASP138 3.3 83.9 1.0 O3A D:DTP501 3.3 92.8 1.0 CG D:ASP223 3.3 87.4 1.0 O3B D:DTP501 3.4 0.9 1.0 C D:LEU139 3.4 85.5 1.0 OD1 D:ASP138 3.7 81.4 1.0 N D:LEU139 3.8 85.8 1.0 OD1 D:ASP223 3.9 84.5 1.0 O2G D:DTP501 4.0 0.8 1.0 C5' D:DTP501 4.1 86.3 1.0 CA D:LEU139 4.1 86.6 1.0 O5' D:DTP501 4.1 86.4 1.0 O3G D:DTP501 4.4 0.4 1.0 N D:GLU140 4.4 88.3 1.0 CB D:ASP223 4.5 87.9 1.0 NZ D:LYS258 4.5 92.3 1.0 CB D:ASP138 4.5 86.4 1.0 O1A D:DTP501 4.5 87.6 1.0 O2B D:DTP501 4.5 97.1 1.0 C D:ASP138 4.6 88.2 1.0 CB D:PHE142 4.6 79.0 1.0 N D:LYS141 4.7 85.6 1.0 CA D:GLU140 4.7 89.0 1.0 CB D:LEU139 4.8 85.3 1.0 N D:PHE142 4.8 81.6 1.0 C D:GLU140 5.0 87.5 1.0 CA D:ASP138 5.0 87.5 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