Magnesium in PDB 5usg: 5-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant

All present enzymatic activity of 5-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant:
3.1.26.4;

The structure of 5-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5usg was solved by Z.Fang, L.Qin, Z.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.51 / 1.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	80.952, 37.827, 62.070, 90.00, 96.20, 90.00
R / Rfree (%)	17.8 / 22.1

The binding sites of Magnesium atom in the 5-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant (pdb code 5usg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the 5-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5usg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the 5-Se-T2/4-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 5-Se-T2/4-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 B:Mg201 b:2.2 occ:1.00 O B:HOH301 1.3 26.5 1.0 OD1 A:ASP71 1.8 18.4 1.0 OD1 A:ASN132 1.9 17.6 1.0 OE2 A:GLU109 2.1 16.6 1.0 O3' B:A6 2.4 21.5 1.0 CG A:ASN132 2.7 13.7 1.0 ND2 A:ASN132 2.9 15.3 1.0 CD A:GLU109 2.9 15.2 1.0 CG A:ASP71 3.0 16.1 1.0 OE1 A:GLU109 3.1 15.9 1.0 OD2 A:ASP71 3.4 18.5 1.0 O A:HOH316 3.4 15.6 1.0 MG A:MG201 3.6 36.7 1.0 C3' B:A6 3.6 20.8 1.0 O2' B:A6 3.9 20.8 1.0 O A:HOH319 3.9 37.6 1.0 C4' B:A6 4.0 19.9 1.0 CB A:ASN132 4.2 13.1 1.0 CG A:GLU109 4.3 12.9 1.0 CB A:ASP71 4.3 14.7 1.0 C2' B:A6 4.4 19.9 1.0 CG1 A:VAL72 4.5 16.1 1.0 N A:VAL72 4.6 13.9 1.0 CA A:ASP71 4.7 14.6 1.0 C5' B:A6 4.7 19.5 1.0 O A:HOH313 4.8 32.0 1.0 CA A:ASN132 4.8 12.6 1.0 C A:ASN132 4.8 12.2 1.0 N A:ASN132 4.8 12.1 1.0 N A:SER133 4.9 12.2 1.0 O A:VAL72 5.0 17.2 1.0

Magnesium binding site 2 out of 2 in the 5-Se-T2/4-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 5-Se-T2/4-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:36.7 occ:1.00 O A:HOH319 2.0 37.6 1.0 O A:HOH313 2.0 32.0 1.0 OD2 A:ASP71 2.1 18.5 1.0 O B:HOH301 2.5 26.5 1.0 OD1 A:ASP192 2.5 39.9 1.0 CG A:ASP71 3.1 16.1 1.0 OD1 A:ASP71 3.4 18.4 1.0 CG A:ASP192 3.5 37.0 1.0 MG B:MG201 3.6 2.2 1.0 O3' B:A6 3.8 21.5 1.0 ND2 A:ASN132 3.9 15.3 1.0 CB A:ASP192 4.0 28.1 1.0 O A:VAL72 4.1 17.2 1.0 CA A:ASP192 4.2 24.8 1.0 OE2 A:GLU188 4.4 61.0 1.0 CB A:ASP71 4.4 14.7 1.0 OD2 A:ASP192 4.5 39.7 1.0 N A:TYR193 4.7 27.3 1.0 CG2 A:ILE189 4.8 16.6 1.0 CG A:ASN132 4.9 13.7 1.0 OD1 A:ASN132 4.9 17.6 1.0 C3' B:A6 5.0 20.8 1.0

Z.Fang, L.Qin, Z.Huang. 5-Se-T Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant To Be Published.