Magnesium in PDB 5chg: Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna

All present enzymatic activity of Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna:
2.7.7.7;

The structure of Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna, PDB code: 5chg was solved by M.S.Liu, M.D.Tsai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.89 / 2.90
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	83.893, 83.893, 398.646, 90.00, 90.00, 120.00
R / Rfree (%)	20.5 / 24.7

The binding sites of Magnesium atom in the Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna (pdb code 5chg). 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 Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna, PDB code: 5chg:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg601 b:31.1 occ:1.00 O A:SER339 2.4 26.9 1.0 O A:ALA344 2.5 25.8 1.0 O A:ILE341 2.5 23.5 1.0 OP1 P:DT4 2.6 26.3 1.0 OP2 P:DT4 3.3 28.1 1.0 P P:DT4 3.4 30.9 1.0 C A:SER339 3.6 23.7 1.0 C A:ALA344 3.6 20.3 1.0 C A:ILE341 3.6 26.8 1.0 N A:ALA344 4.0 28.4 1.0 N A:ILE341 4.2 22.4 1.0 O3' P:DG3 4.3 25.1 1.0 CA A:TRP342 4.3 20.6 1.0 N A:GLY343 4.3 24.2 1.0 CA A:ALA344 4.3 20.6 1.0 N A:TRP342 4.3 24.5 1.0 C A:ASN340 4.4 23.5 1.0 CA A:SER339 4.4 22.2 1.0 N A:ASN340 4.5 24.0 1.0 CA A:ASN340 4.5 22.5 1.0 CA A:ILE341 4.6 22.9 1.0 N A:GLY345 4.6 20.0 1.0 C A:TRP342 4.7 23.9 1.0 O5' P:DT4 4.7 24.9 1.0 CB A:ALA344 4.8 20.2 1.0 CA A:GLY345 4.8 22.4 1.0 O A:ASN340 4.9 30.9 1.0

Magnesium binding site 2 out of 2 in the Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Dna Polymerase Lambda L431A Mutant- Mgdgtp Binary and Complex with 6 Paired Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:34.5 occ:1.00 OD1 B:ASP429 1.9 34.0 1.0 O2B B:DGT603 2.0 39.2 1.0 OD1 B:ASP427 2.0 37.5 1.0 O1A B:DGT603 2.3 29.0 1.0 O2G B:DGT603 2.4 29.8 1.0 CG B:ASP429 3.1 34.4 1.0 CG B:ASP427 3.2 35.0 1.0 PB B:DGT603 3.3 32.5 1.0 PA B:DGT603 3.5 32.1 1.0 O B:ASP427 3.6 32.8 1.0 PG B:DGT603 3.6 31.9 1.0 OD2 B:ASP429 3.6 35.1 1.0 OD2 B:ASP427 3.8 41.8 1.0 O3A B:DGT603 3.8 39.5 1.0 O3B B:DGT603 3.9 45.2 1.0 C B:ASP427 3.9 28.2 1.0 OG B:SER417 4.0 38.7 1.0 N B:ASP427 4.2 28.3 1.0 O1G B:DGT603 4.2 30.5 1.0 O B:HOH702 4.2 26.0 1.0 N B:SER417 4.2 30.0 1.0 CB B:ASP429 4.3 31.0 1.0 C5' B:DGT603 4.3 29.9 1.0 CA B:GLY416 4.3 24.7 1.0 N B:ASP429 4.4 29.9 1.0 CB B:ASP427 4.4 30.5 1.0 CA B:ASP427 4.4 28.9 1.0 O1B B:DGT603 4.4 36.5 1.0 O5' B:DGT603 4.4 40.0 1.0 N B:VAL428 4.5 27.2 1.0 O2A B:DGT603 4.6 35.2 1.0 C B:VAL428 4.7 30.0 1.0 CA B:VAL428 4.8 26.9 1.0 O3G B:DGT603 4.8 36.3 1.0 C B:GLY416 4.8 26.1 1.0 CA B:ASP429 4.9 28.6 1.0 CB B:SER417 5.0 32.0 1.0

M.S.Liu, H.Y.Tsai, X.X.Liu, M.C.Ho, W.J.Wu, M.D.Tsai. Structural Mechanism For the Fidelity Modulation of Dna Polymerase Lambda J.Am.Chem.Soc. V. 138 2389 2016.
ISSN: ESSN 1520-5126
PubMed: 26836966
DOI: 10.1021/JACS.5B13368