Magnesium in PDB 5w7n: 2-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant

All present enzymatic activity of 2-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant:
3.1.26.4;

The structure of 2-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5w7n 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 / 1.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	80.686, 37.690, 62.180, 90.00, 95.95, 90.00
R / Rfree (%)	19.2 / 23.2

The binding sites of Magnesium atom in the 2-Se-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant (pdb code 5w7n). 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-T2/4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5w7n:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the 2-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 2-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:20.5 occ:1.00 O A:HOH308 1.9 26.2 1.0 OD1 A:ASP192 2.0 23.3 1.0 O A:HOH311 2.0 21.2 1.0 OD2 A:ASP71 2.1 15.8 1.0 O A:HOH303 2.2 31.2 1.0 CG A:ASP71 3.0 15.5 1.0 CG A:ASP192 3.2 28.2 1.0 OD1 A:ASP71 3.3 15.8 1.0 CB A:ASP192 3.9 25.4 1.0 OE1 A:GLU188 4.0 52.2 1.0 O3' B:A6 4.1 39.4 1.0 OD2 A:ASP192 4.1 34.0 1.0 CA A:ASP192 4.1 24.1 1.0 O A:VAL72 4.2 15.3 1.0 ND2 A:ASN132 4.2 15.0 1.0 MG A:MG202 4.3 52.0 1.0 N A:TYR193 4.4 25.5 1.0 CB A:ASP71 4.4 13.6 1.0 CG2 A:ILE189 4.8 17.1 1.0 C3' B:A6 4.8 44.9 1.0 C A:ASP192 4.8 26.3 1.0

Magnesium binding site 2 out of 2 in the 2-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 2-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:Mg202 b:52.0 occ:1.00 OD1 A:ASP71 2.0 15.8 1.0 OD1 A:ASN132 2.2 14.7 1.0 O A:HOH305 2.3 15.4 1.0 OE2 A:GLU109 2.4 24.0 1.0 OE1 A:GLU109 2.7 21.7 1.0 CD A:GLU109 2.8 19.3 1.0 CG A:ASP71 3.0 15.5 1.0 O A:HOH303 3.0 31.2 1.0 CG A:ASN132 3.1 13.9 1.0 ND2 A:ASN132 3.5 15.0 1.0 O3' B:A6 3.6 39.4 1.0 OD2 A:ASP71 3.7 15.8 1.0 CB A:ASP71 3.9 13.6 1.0 CA A:ASP71 3.9 14.2 1.0 O A:HOH308 4.1 26.2 1.0 N A:VAL72 4.1 13.8 1.0 N A:ASN132 4.2 12.2 1.0 O A:VAL70 4.3 14.3 1.0 CG A:GLU109 4.3 16.8 1.0 MG A:MG201 4.3 20.5 1.0 CB A:ASN132 4.3 12.5 1.0 O A:HOH302 4.4 21.9 1.0 N A:SER133 4.6 12.2 1.0 CA A:ASN132 4.6 12.0 1.0 C A:ASP71 4.6 14.7 1.0 CG1 A:VAL72 4.6 19.7 1.0 C A:ASN132 4.7 10.9 1.0 CB A:SER133 4.7 12.5 1.0 OG A:SER131 4.9 10.4 1.0 C3' B:A6 4.9 44.9 1.0 CG2 A:ILE189 5.0 17.1 1.0

Z.Fang, F.Yang, Z.Huang. 2-Se-T2/4-Modified-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant To Be Published.