Magnesium in PDB 4d05: Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium

The structure of Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium, PDB code: 4d05 was solved by A.Williamson, U.Rothweiler, H.-K.S.Leiros, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.610 / 1.65
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	178.427, 43.976, 89.633, 90.00, 105.92, 90.00
R / Rfree (%)	14.54 / 19.24

The binding sites of Magnesium atom in the Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium (pdb code 4d05). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium, PDB code: 4d05:

Magnesium binding site 1 out of 1 in the Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure and Activity of A Minimal-Type Atp-Dependent Dna Ligase From A Psychrotolernt Bacterium within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1261 b:41.5 occ:1.00 HD2 B:HIS157 1.8 43.4 1.0 CD2 B:HIS157 2.7 36.2 1.0 O B:HOH2018 2.8 24.7 1.0 O B:HOH2181 2.8 33.5 1.0 O B:PHE97 2.9 29.8 1.0 HZ B:PHE106 3.0 38.6 1.0 HE1 B:PHE106 3.1 38.8 1.0 HB2 B:PHE97 3.1 30.1 1.0 HD1 B:PHE97 3.1 30.7 1.0 CZ B:PHE106 3.3 32.2 1.0 CE1 B:PHE106 3.3 32.4 1.0 H2 B:AMP1260 3.4 31.7 1.0 NE2 B:HIS157 3.6 39.4 1.0 HB2 B:ASP98 3.6 38.7 1.0 HE2 B:HIS157 3.6 47.3 1.0 C B:PHE97 3.8 26.6 1.0 CG B:HIS157 3.8 35.4 1.0 HE22 B:GLN130 3.9 34.9 1.0 HB2 B:HIS157 3.9 38.5 1.0 CD1 B:PHE97 3.9 25.6 1.0 HD11 B:LEU171 4.0 41.5 1.0 CB B:PHE97 4.0 25.1 1.0 HD12 B:LEU171 4.1 41.5 1.0 C2 B:AMP1260 4.2 26.4 1.0 OD2 B:ASP98 4.2 35.3 1.0 CE2 B:PHE106 4.3 32.5 1.0 N1 B:AMP1260 4.3 27.3 1.0 CB B:HIS157 4.3 32.0 1.0 CB B:ASP98 4.4 32.2 1.0 CD1 B:PHE106 4.4 33.1 1.0 CG B:ASP98 4.4 34.6 1.0 CG B:PHE97 4.4 24.9 1.0 CA B:PHE97 4.4 25.3 1.0 CD1 B:LEU171 4.4 34.6 1.0 NE2 B:GLN130 4.5 29.1 1.0 HB3 B:HIS157 4.5 38.5 1.0 N B:ASP98 4.6 27.8 1.0 HE2 B:PHE106 4.6 39.0 1.0 HA B:PHE97 4.7 30.4 1.0 HE21 B:GLN130 4.7 34.9 1.0 HB3 B:PHE97 4.7 30.1 1.0 HA B:ASP98 4.7 36.1 1.0 HD13 B:LEU171 4.8 41.5 1.0 HD1 B:PHE106 4.8 39.7 1.0 CE1 B:HIS157 4.8 39.2 1.0 CA B:ASP98 4.9 30.1 1.0 ND1 B:HIS157 4.9 38.7 1.0 CE1 B:PHE97 4.9 26.8 1.0 HE1 B:PHE97 5.0 32.2 1.0

A.Williamson, U.Rothweiler, H.-K.S.Leiros. Enzyme-Adenylate Structure of A Bacterial Atp-Dependent Dna Ligase with A Minimized Dna-Binding Surface Acta Crystallogr.,Sect.D V. 70 3043 2014.
ISSN: ISSN 0907-4449
DOI: 10.1107/S1399004714021099