Magnesium in PDB 1tfr: Rnase H From Bacteriophage T4

All present enzymatic activity of Rnase H From Bacteriophage T4:
3.1.26.4;

The structure of Rnase H From Bacteriophage T4, PDB code: 1tfr was solved by T.C.Mueser, N.G.Nossal, C.C.Hyde, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 2.06
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	74.470, 87.580, 54.560, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Magnesium atom in the Rnase H From Bacteriophage T4 (pdb code 1tfr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rnase H From Bacteriophage T4, PDB code: 1tfr:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rnase H From Bacteriophage T4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rnase H From Bacteriophage T4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg350 b:33.0 occ:1.00 O A:HOH405 2.1 24.6 1.0 O A:HOH404 2.2 35.9 1.0 O A:HOH402 2.2 29.6 1.0 O A:HOH403 2.2 25.6 1.0 O A:HOH406 2.3 27.9 1.0 O A:HOH401 2.4 26.6 1.0 OD2 A:ASP132 3.9 27.9 1.0 O A:LEU257 3.9 20.0 1.0 OD2 A:ASP157 4.0 25.9 1.0 O A:HOH467 4.1 31.2 1.0 OD2 A:ASP200 4.2 19.3 1.0 OH A:TYR86 4.2 25.3 1.0 CE1 A:PHE260 4.4 18.9 1.0 O A:HOH428 4.4 24.6 1.0 O A:ILE258 4.6 23.9 1.0 O A:HOH412 4.6 37.5 1.0 OE1 A:GLU130 4.6 31.2 1.0 CG A:ASP132 4.6 29.8 1.0 CZ A:ARG79 4.7 21.5 1.0 CB A:ASP132 4.7 19.9 1.0 NH1 A:ARG79 4.7 17.4 1.0 NH2 A:ARG79 4.8 20.8 1.0 O A:HOH410 4.9 28.2 1.0 CG A:ASP157 5.0 29.0 1.0 NE A:ARG79 5.0 23.7 1.0

Magnesium binding site 2 out of 2 in the Rnase H From Bacteriophage T4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rnase H From Bacteriophage T4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg351 b:38.1 occ:1.00 OD1 A:ASP132 1.8 33.8 1.0 O A:HOH409 2.1 40.4 1.0 O A:HOH408 2.2 36.7 1.0 O A:HOH410 2.4 28.2 1.0 O A:HOH411 2.5 30.1 1.0 O A:HOH407 2.5 16.9 1.0 CG A:ASP132 2.7 29.8 1.0 OD2 A:ASP132 3.1 27.9 1.0 O A:HOH412 3.6 37.5 1.0 OD1 A:ASP71 4.0 18.9 1.0 CB A:ASP132 4.0 19.9 1.0 N A:ASP132 4.0 16.6 1.0 OD1 A:ASP19 4.1 20.1 1.0 OD2 A:ASP71 4.3 21.0 1.0 OD2 A:ASP155 4.4 34.4 1.0 CA A:ASP132 4.4 14.9 1.0 OD2 A:ASP19 4.4 16.3 1.0 CG A:ASP71 4.5 15.9 1.0 O A:HOH414 4.5 60.4 1.0 CG A:ASP19 4.6 24.0 1.0 OE1 A:GLU130 4.7 31.2 1.0 CB A:ALA131 4.8 24.1 1.0 C A:ALA131 4.9 22.1 1.0 N A:ALA131 4.9 20.4 1.0 CZ A:PHE158 5.0 11.9 1.0

T.C.Mueser, N.G.Nossal, C.C.Hyde. Structure of Bacteriophage T4 Rnase H, A 5' to 3' Rna-Dna and Dna-Dna Exonuclease with Sequence Similarity to the RAD2 Family of Eukaryotic Proteins. Cell(Cambridge,Mass.) V. 85 1101 1996.
ISSN: ISSN 0092-8674
PubMed: 8674116
DOI: 10.1016/S0092-8674(00)81310-0