Magnesium in PDB 5w7o: 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant

All present enzymatic activity of 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant:
3.1.26.4;

The structure of 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5w7o was solved by Z.Fang, F.Yang, Z.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.75
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	80.710, 37.579, 62.319, 90.00, 96.01, 90.00
R / Rfree (%)	18.2 / 22.9

The binding sites of Magnesium atom in the 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant (pdb code 5w7o). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5w7o:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg201 b:18.2 occ:1.00 OD1 A:ASN132 2.2 16.5 1.0 OD1 A:ASP71 2.2 16.9 1.0 OE2 A:GLU109 2.3 17.5 1.0 O3' B:A6 2.5 14.7 1.0 O A:HOH320 2.6 24.8 1.0 ND2 A:ASN132 2.7 17.0 1.0 CG A:ASN132 2.7 14.6 1.0 O A:HOH318 3.0 16.8 1.0 CD A:GLU109 3.2 15.1 1.0 CG A:ASP71 3.2 16.7 1.0 OE1 A:GLU109 3.4 15.5 1.0 OD2 A:ASP71 3.7 18.9 1.0 C3' B:A6 3.7 14.4 1.0 MG A:MG202 4.0 62.0 1.0 O2' B:A6 4.0 15.1 1.0 C4' B:A6 4.0 15.0 1.0 CB A:ASN132 4.2 13.6 1.0 CB A:ASP71 4.4 14.5 1.0 C2' B:A6 4.5 14.9 1.0 CG A:GLU109 4.6 13.2 1.0 C5' B:A6 4.6 14.4 1.0 N A:VAL72 4.7 15.3 1.0 CA A:ASP71 4.7 14.9 1.0 CG1 A:VAL72 4.7 18.1 1.0 N A:ASN132 4.8 13.3 1.0 CA A:ASN132 4.8 12.7 1.0 C A:ASN132 4.9 12.7 1.0 CG2 A:ILE189 5.0 16.9 1.0

Magnesium binding site 2 out of 2 in the 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 2-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg202 b:62.0 occ:1.00 O A:HOH320 1.8 24.8 1.0 OD1 A:ASP192 2.1 36.9 1.0 O A:HOH303 2.4 25.2 1.0 OD2 A:ASP71 2.4 18.9 1.0 CG A:ASP192 3.2 36.4 1.0 CG A:ASP71 3.3 16.7 1.0 OD1 A:ASP71 3.6 16.9 1.0 CB A:ASP192 3.9 30.5 1.0 MG A:MG201 4.0 18.2 1.0 CA A:ASP192 4.1 26.7 1.0 O A:VAL72 4.2 14.1 1.0 OD2 A:ASP192 4.2 39.3 1.0 O3' B:A6 4.2 14.7 1.0 N A:TYR193 4.5 26.3 1.0 ND2 A:ASN132 4.5 17.0 1.0 OE1 A:GLU188 4.6 56.0 1.0 CB A:ASP71 4.7 14.5 1.0 C A:ASP192 4.9 29.0 1.0 CG2 A:ILE189 5.0 16.9 1.0

Z.Fang, F.Yang, Z.Huang. 2-Se-T-Modified-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant To Be Published.