Magnesium in PDB 3h4l: Crystal Structure of N Terminal Domain of A Dna Repair Protein

The structure of Crystal Structure of N Terminal Domain of A Dna Repair Protein, PDB code: 3h4l was solved by M.E.Arana, S.F.Holmes, J.M.Fortune, A.F.Moon, L.C.Pedersen, T.A.Kunkel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.87 / 2.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	75.592, 103.288, 117.167, 90.00, 90.00, 90.00
R / Rfree (%)	23.5 / 28.6

The binding sites of Magnesium atom in the Crystal Structure of N Terminal Domain of A Dna Repair Protein (pdb code 3h4l). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of N Terminal Domain of A Dna Repair Protein, PDB code: 3h4l:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of N Terminal Domain of A Dna Repair Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of N Terminal Domain of A Dna Repair Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg701 b:29.4 occ:1.00 O A:HOH2 2.1 38.0 1.0 O1G A:ANP397 2.2 36.8 1.0 O1A A:ANP397 2.2 40.6 1.0 OD1 A:ASN65 2.2 21.7 1.0 O A:HOH1 2.2 27.8 1.0 O2B A:ANP397 2.3 33.0 1.0 PG A:ANP397 2.9 37.8 1.0 O2G A:ANP397 2.9 34.8 1.0 PB A:ANP397 3.1 35.5 1.0 PA A:ANP397 3.3 37.8 1.0 CG A:ASN65 3.3 26.1 1.0 O3A A:ANP397 3.3 35.5 1.0 N3B A:ANP397 3.3 34.4 1.0 ND2 A:ASN65 3.7 23.1 1.0 O A:HOH439 4.2 42.8 1.0 O5' A:ANP397 4.2 36.6 1.0 OE1 A:GLU61 4.2 36.2 1.0 O3G A:ANP397 4.3 36.4 1.0 O A:GLU61 4.4 30.9 1.0 OD2 A:ASP68 4.5 33.4 1.0 NZ A:LYS364 4.5 44.0 1.0 O1B A:ANP397 4.5 36.1 1.0 O2A A:ANP397 4.5 40.9 1.0 CB A:ASN65 4.6 23.0 1.0 CB A:ALA130 4.6 42.2 1.0 NZ B:LYS229 4.7 36.4 1.0 N A:ASN65 4.8 30.2 1.0 CA A:ASN65 4.8 26.8 1.0 C5' A:ANP397 4.9 38.7 1.0 CB A:ASP64 5.0 32.0 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of N Terminal Domain of A Dna Repair Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of N Terminal Domain of A Dna Repair Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg702 b:32.2 occ:1.00 O1G B:ANP397 1.8 36.3 1.0 O1A B:ANP397 1.9 29.8 1.0 O2B B:ANP397 2.0 32.1 1.0 O B:HOH4 2.1 20.9 1.0 OD1 B:ASN65 2.2 28.2 1.0 O B:HOH3 2.2 25.0 1.0 PB B:ANP397 2.7 32.8 1.0 PG B:ANP397 2.8 36.5 1.0 PA B:ANP397 2.9 31.3 1.0 O3A B:ANP397 2.9 30.6 1.0 N3B B:ANP397 3.1 33.4 1.0 CG B:ASN65 3.1 28.6 1.0 O2G B:ANP397 3.3 33.2 1.0 ND2 B:ASN65 3.5 30.0 1.0 O5' B:ANP397 3.8 30.9 1.0 O B:HOH21 3.9 25.9 1.0 O B:HOH423 4.0 40.9 1.0 O1B B:ANP397 4.2 35.1 1.0 O3G B:ANP397 4.2 35.8 1.0 O2A B:ANP397 4.2 28.9 1.0 CB B:ASN65 4.5 27.1 1.0 C5' B:ANP397 4.5 28.9 1.0 OE1 B:GLU61 4.6 34.1 1.0 OD2 B:ASP68 4.6 36.2 1.0 O B:HOH405 4.6 35.7 1.0 O B:GLU61 4.7 31.9 1.0 CB B:ALA130 4.8 26.7 1.0 CA B:ASN65 4.8 28.1 1.0 N B:ASN65 4.9 28.6 1.0

M.E.Arana, S.F.Holmes, J.M.Fortune, A.F.Moon, L.C.Pedersen, T.A.Kunkel. Functional Residues on the Surface of the N-Terminal Domain of Yeast PMS1. Dna Repair V. 9 448 2010.
ISSN: ISSN 1568-7864
PubMed: 20138591
DOI: 10.1016/J.DNAREP.2010.01.010