Sodium in PDB 3ga6: MTH0212 in Complex with Two Dna Helices

All present enzymatic activity of MTH0212 in Complex with Two Dna Helices:
3.1.11.2;

The structure of MTH0212 in Complex with Two Dna Helices, PDB code: 3ga6 was solved by K.Lakomek, A.Dickmanns, R.Ficner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.71 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.834, 126.655, 54.826, 90.00, 93.14, 90.00
R / Rfree (%)	15.5 / 20.3

The binding sites of Sodium atom in the MTH0212 in Complex with Two Dna Helices (pdb code 3ga6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the MTH0212 in Complex with Two Dna Helices, PDB code: 3ga6:

Sodium binding site 1 out of 1 in the MTH0212 in Complex with Two Dna Helices


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of MTH0212 in Complex with Two Dna Helices within 5.0Å range: probe atom residue distance (Å) B Occ A:Na7401 b:30.4 occ:1.00 O A:HOH9008 2.8 23.4 1.0 O A:ASP1032 3.0 30.7 1.0 O3 A:GOL7006 3.1 32.1 1.0 N A:VAL1077 3.1 35.3 1.0 OG1 A:THR1075 3.3 42.4 1.0 N A:LYS1076 3.4 29.3 1.0 C A:ASP1032 3.6 27.7 1.0 CB A:LYS1076 3.6 31.0 1.0 C3 A:GOL7006 3.6 39.4 1.0 CA A:LYS1076 3.8 31.8 1.0 CB A:ASP1032 3.8 20.7 1.0 CG2 A:VAL1077 3.9 39.6 1.0 CG1 A:ILE1033 3.9 26.1 1.0 CB A:VAL1077 3.9 39.5 1.0 C A:LYS1076 3.9 35.6 1.0 CA A:VAL1077 4.0 38.0 1.0 CA A:ASP1032 4.0 24.0 1.0 C A:THR1075 4.1 30.1 1.0 O A:VAL1077 4.2 36.4 1.0 OD1 A:ASP1032 4.3 27.2 1.0 CB A:THR1075 4.4 32.5 1.0 CD1 A:LEU1004 4.4 26.5 1.0 CA A:THR1075 4.4 28.7 1.0 CG A:LYS1076 4.5 35.0 1.0 N A:ILE1033 4.5 24.2 1.0 CG A:ASP1032 4.6 26.1 1.0 C A:VAL1077 4.6 36.0 1.0 CD1 A:ILE1033 4.7 26.3 1.0 CD A:LYS1076 4.9 37.7 1.0 CA A:ILE1033 4.9 26.3 1.0

K.Lakomek, A.Dickmanns, E.Ciirdaeva, L.Schomacher, R.Ficner. Crystal Structure Analysis of Dna Uridine Endonuclease MTH212 Bound to Dna J.Mol.Biol. V. 399 604 2010.
ISSN: ISSN 0022-2836
PubMed: 20434457
DOI: 10.1016/J.JMB.2010.04.044