Magnesium in PDB 9fxn: Human Mitochondrial Nuclease Exog (Hexog)

The structure of Human Mitochondrial Nuclease Exog (Hexog), PDB code: 9fxn was solved by J.M.Karasinska, M.R.Szymanski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.55 / 1.62
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	73.55, 83.56, 74.39, 90, 113.51, 90
R / Rfree (%)	15.7 / 22.8

The binding sites of Magnesium atom in the Human Mitochondrial Nuclease Exog (Hexog) (pdb code 9fxn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human Mitochondrial Nuclease Exog (Hexog), PDB code: 9fxn:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human Mitochondrial Nuclease Exog (Hexog)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Mitochondrial Nuclease Exog (Hexog) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:33.1 occ:0.55 O A:HOH536 1.9 41.9 1.0 O A:HOH565 2.0 44.6 1.0 OD1 A:ASN171 2.0 39.7 0.6 O A:HOH519 2.1 44.4 1.0 O A:HOH522 2.1 48.9 1.0 O A:HOH523 2.2 44.9 1.0 CG A:ASN171 3.1 37.9 0.8 HD21 A:ASN171 3.3 48.0 0.0 H A:HIS140 3.3 40.9 0.0 ND2 A:ASN171 3.6 39.9 0.4 HB2 A:HIS140 3.6 42.9 0.0 HD1 A:TRP175 3.6 44.8 0.0 HA2 A:GLY139 3.9 42.9 0.6 OE2 A:GLU179 4.0 40.2 0.6 OE1 A:GLU179 4.0 41.9 0.7 N A:HIS140 4.0 34.0 0.6 O A:ASN171 4.1 32.5 0.6 HA A:ASN171 4.2 44.2 0.9 ND1 A:HIS140 4.3 34.7 0.6 OE1 A:GLN166 4.3 33.9 0.6 CB A:ASN171 4.4 37.9 0.7 CD A:GLU179 4.4 38.5 0.5 HD22 A:ASN171 4.4 48.0 1.0 CB A:HIS140 4.5 35.7 0.6 CD1 A:TRP175 4.5 37.2 0.6 O A:HIS140 4.5 33.3 0.6 C A:ASN171 4.6 38.0 0.7 O A:HOH613 4.6 38.0 1.0 CA A:ASN171 4.6 36.8 0.8 CA A:GLY139 4.7 35.7 0.6 CA A:HIS140 4.8 33.9 0.7 C A:GLY139 4.8 35.5 0.7 CG A:HIS140 4.9 34.3 0.7 HE22 A:GLN166 4.9 40.7 0.7 HA3 A:GLY139 4.9 42.9 1.0 HE1 A:TRP175 4.9 43.5 0.0 HB3 A:ASN171 4.9 45.5 1.0 HH22 A:ARG109 5.0 71.1 0.8 HB2 A:ASN171 5.0 45.5 0.9

Magnesium binding site 2 out of 2 in the Human Mitochondrial Nuclease Exog (Hexog)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Mitochondrial Nuclease Exog (Hexog) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:27.3 occ:0.39 O B:HOH578 2.0 43.0 1.0 O B:HOH520 2.0 46.0 1.0 OD1 B:ASN171 2.0 42.3 0.7 O B:HOH535 2.0 48.8 1.0 O B:HOH572 2.0 46.7 1.0 O B:HOH523 2.0 43.4 1.0 CG B:ASN171 3.1 38.8 0.7 HD21 B:ASN171 3.3 42.3 0.7 H B:HIS140 3.3 45.7 0.0 ND2 B:ASN171 3.6 35.2 0.4 HB2 B:HIS140 3.6 44.3 0.3 HD1 B:TRP175 3.7 41.8 0.9 HA2 B:GLY139 3.8 41.0 0.9 OE2 B:GLU179 4.0 38.4 0.6 N B:HIS140 4.0 38.0 0.7 O B:ASN171 4.1 35.3 0.7 OE1 B:GLU179 4.1 33.7 0.5 HA B:ASN171 4.2 43.4 1.0 OE1 B:GLN166 4.2 34.6 0.7 O B:HOH630 4.3 72.7 1.0 ND1 B:HIS140 4.3 35.2 0.6 CB B:ASN171 4.4 38.1 0.7 CD B:GLU179 4.4 34.2 0.5 HD22 B:ASN171 4.4 42.3 1.0 CB B:HIS140 4.5 36.9 0.6 O B:HIS140 4.5 32.3 0.6 CD1 B:TRP175 4.5 34.7 0.5 CA B:ASN171 4.6 36.1 0.7 C B:ASN171 4.6 35.6 0.6 CA B:GLY139 4.6 34.1 0.6 O B:HOH620 4.7 37.9 1.0 CA B:HIS140 4.8 34.9 0.8 HE22 B:GLN166 4.8 39.0 0.4 C B:GLY139 4.8 35.6 0.7 HA3 B:GLY139 4.8 41.0 1.0 CG B:HIS140 4.9 34.8 0.7 HH22 B:ARG109 4.9 62.1 0.1 HB3 B:ASN171 4.9 45.7 0.7 HB2 B:ASN171 5.0 45.7 0.7 HE1 B:TRP175 5.0 46.6 0.6

J.M.Karasinska, M.R.Szymanski. Human Mitochondrial Nuclease Exog (Hexog) Nat Commun V. 8 14959 2017.
ISSN: ESSN 2041-1723