Magnesium in PDB 7dbn: Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex

All present enzymatic activity of Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex:
2.7.7.49; 3.1.26.13;

The structure of Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex, PDB code: 7dbn was solved by Y.Yasutake, S.I.Hattori, N.Tamura, K.Maeda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.90 / 2.67
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	285.681, 285.681, 96.282, 90, 90, 120
R / Rfree (%)	17.7 / 22.5

The binding sites of Magnesium atom in the Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex (pdb code 7dbn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex, PDB code: 7dbn:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg603 b:42.1 occ:0.39 O A:VAL111 2.3 64.7 1.0 O1B A:DCP601 2.3 151.4 1.0 OD2 A:ASP185 2.6 80.5 1.0 N A:ALA114 3.1 58.3 1.0 C A:VAL111 3.3 60.9 1.0 N A:ASP113 3.3 68.2 1.0 O1G A:DCP601 3.4 140.5 1.0 C A:GLY112 3.6 66.0 1.0 CB A:ALA114 3.6 50.0 1.0 CG A:ASP185 3.6 71.8 1.0 PB A:DCP601 3.7 151.1 1.0 CA A:GLY112 3.7 64.5 1.0 CA A:ASP113 3.9 72.0 1.0 N A:GLY112 3.9 65.8 1.0 CB A:ASP185 4.0 61.0 1.0 C A:ASP113 4.0 66.7 1.0 CA A:ALA114 4.0 55.1 1.0 O2A A:DCP601 4.1 132.6 1.0 O3B A:DCP601 4.1 146.9 1.0 C5' A:DCP601 4.1 109.2 1.0 O3' A:DCP601 4.2 94.5 1.0 O A:GLY112 4.3 69.2 1.0 PG A:DCP601 4.3 139.6 1.0 O3A A:DCP601 4.3 148.6 1.0 NZ A:LYS220 4.4 96.3 1.0 CA A:VAL111 4.4 63.3 1.0 O2G A:DCP601 4.6 139.4 1.0 CB A:VAL111 4.6 60.9 1.0 PA A:DCP601 4.6 132.8 1.0 CG1 A:VAL111 4.7 64.4 1.0 C4' A:DCP601 4.7 96.5 1.0 OD1 A:ASP185 4.8 73.7 1.0 O5' A:DCP601 4.8 123.7 1.0 O2B A:DCP601 4.8 154.0 1.0 N A:VAL111 4.8 62.3 1.0 C3' A:DCP601 4.9 94.5 1.0

Magnesium binding site 2 out of 2 in the Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Hiv-1 Reverse Transcriptase Mutant Q151M/Y115F/F116Y/M184V/F160M:Dna:Dctp Ternary Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg603 b:144.9 occ:0.84 O2B C:DCP601 2.1 135.0 1.0 O C:VAL111 2.6 68.9 1.0 OD2 C:ASP185 2.9 82.4 1.0 N C:ALA114 3.2 70.8 1.0 N C:ASP113 3.4 73.3 1.0 C5' C:DCP601 3.5 98.2 1.0 PB C:DCP601 3.6 126.7 1.0 C C:VAL111 3.6 65.1 1.0 CB C:ALA114 3.6 71.2 1.0 CG C:ASP185 3.7 78.4 1.0 O2G C:DCP601 3.8 126.5 1.0 C C:GLY112 3.9 68.5 1.0 O3' C:DCP601 3.9 85.8 1.0 CA C:ASP113 3.9 82.3 1.0 NZ C:LYS220 4.0 108.7 1.0 CA C:ALA114 4.0 72.2 1.0 O2A C:DCP601 4.0 110.5 1.0 C C:ASP113 4.1 75.8 1.0 CB C:ASP185 4.1 76.4 1.0 CA C:GLY112 4.1 65.6 1.0 OD2 C:ASP110 4.1 112.7 1.0 C4' C:DCP601 4.2 91.3 1.0 O3B C:DCP601 4.2 123.6 1.0 N C:GLY112 4.3 67.3 1.0 O3A C:DCP601 4.4 129.2 1.0 C3' C:DCP601 4.4 86.0 1.0 O5' C:DCP601 4.4 105.6 1.0 PG C:DCP601 4.5 124.6 1.0 PA C:DCP601 4.5 115.9 1.0 O1B C:DCP601 4.5 125.5 1.0 O C:GLY112 4.6 76.4 1.0 CA C:VAL111 4.7 63.1 1.0 OD1 C:ASP185 4.7 78.0 1.0 O1G C:DCP601 4.7 124.3 1.0 CB C:VAL111 4.9 63.6 1.0 N C:VAL111 4.9 68.5 1.0 CG1 C:VAL111 5.0 59.6 1.0

S.Nakajima, K.Watashi, T.Kato, M.Muramatsu, T.Wakita, N.Tamura, S.I.Hattori, K.Maeda, H.Mitsuya, Y.Yasutake, T.Toyoda. Biochemical and Structural Properties of Entecavir-Resistant Hepatitis B Virus Polymerase with L180M/M204V Mutations. J.Virol. V. 95 40120 2021.
ISSN: ESSN 1098-5514
PubMed: 34076480
DOI: 10.1128/JVI.02401-20