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

All present enzymatic activity of 5-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant:
3.1.26.4;

The structure of 5-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5use 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)	30.95 / 1.73
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	80.912, 37.560, 62.258, 90.00, 96.17, 90.00
R / Rfree (%)	19.2 / 23.4

The binding sites of Magnesium atom in the 5-Se-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant (pdb code 5use). 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-T4-Dna and Native Rna Hybrid in Complex with Rnase H Catalytic Domain D132N Mutant, PDB code: 5use:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the 5-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 5-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 B:Mg101 b:30.2 occ:1.00 OD1 A:ASP71 2.1 24.6 1.0 OD1 A:ASN132 2.2 27.1 1.0 OE2 A:GLU109 2.3 28.5 1.0 O3' B:A6 2.5 25.7 1.0 CG A:ASN132 2.8 24.2 1.0 ND2 A:ASN132 2.8 30.5 1.0 O A:HOH304 3.0 40.3 1.0 CD A:GLU109 3.2 23.9 1.0 CG A:ASP71 3.2 25.5 1.0 O A:HOH313 3.3 22.8 1.0 OE1 A:GLU109 3.4 26.9 1.0 OD2 A:ASP71 3.6 26.1 1.0 C3' B:A6 3.7 25.3 1.0 O2' B:A6 3.9 25.6 1.0 MG A:MG201 4.0 45.6 1.0 C4' B:A6 4.0 24.6 1.0 CB A:ASN132 4.2 22.3 1.0 CB A:ASP71 4.4 20.7 1.0 C2' B:A6 4.4 24.1 1.0 CG1 A:VAL72 4.5 25.3 1.0 CG A:GLU109 4.6 19.0 1.0 N A:VAL72 4.6 19.8 1.0 C5' B:A6 4.7 24.3 1.0 CA A:ASP71 4.7 21.7 1.0 CA A:ASN132 4.8 19.3 1.0 N A:ASN132 4.9 17.6 1.0 C A:ASN132 4.9 18.7 1.0

Magnesium binding site 2 out of 2 in the 5-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 5-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:45.6 occ:1.00 O A:HOH304 2.0 40.3 1.0 O A:HOH307 2.1 39.1 1.0 OD1 A:ASP192 2.1 41.2 1.0 OD2 A:ASP71 2.1 26.1 1.0 CG A:ASP71 3.1 25.5 1.0 CG A:ASP192 3.3 44.0 1.0 OD1 A:ASP71 3.4 24.6 1.0 CB A:ASP192 3.9 36.7 1.0 OE2 A:GLU188 3.9 62.5 1.0 CA A:ASP192 3.9 32.6 1.0 O A:VAL72 4.0 21.6 1.0 MG B:MG101 4.0 30.2 1.0 N A:TYR193 4.3 35.4 1.0 OD2 A:ASP192 4.3 50.4 1.0 O3' B:A6 4.4 25.7 1.0 CB A:ASP71 4.4 20.7 1.0 ND2 A:ASN132 4.5 30.5 1.0 C A:ASP192 4.7 33.1 1.0 CG2 A:ILE189 4.9 23.5 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.