Magnesium in PDB 5x06: Dna Replication Regulation Protein

All present enzymatic activity of Dna Replication Regulation Protein:
2.7.7.7;

The structure of Dna Replication Regulation Protein, PDB code: 5x06 was solved by J.Kim, Y.Cho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.59 / 3.24
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	102.112, 149.542, 200.780, 90.00, 90.00, 90.00
R / Rfree (%)	22.6 / 26.5

The binding sites of Magnesium atom in the Dna Replication Regulation Protein (pdb code 5x06). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Dna Replication Regulation Protein, PDB code: 5x06:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Dna Replication Regulation Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dna Replication Regulation Protein within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1002 b:72.3 occ:1.00 O1B E:ADP1001 2.2 0.8 1.0 OG E:SER57 2.5 87.2 1.0 O E:HOH1101 2.5 84.3 1.0 O1A E:ADP1001 2.7 0.5 1.0 PB E:ADP1001 3.4 0.2 1.0 CB E:SER57 3.6 87.8 1.0 O3B E:ADP1001 3.7 0.3 1.0 PA E:ADP1001 3.8 0.0 1.0 O3A E:ADP1001 3.8 0.1 1.0 ND2 E:ASN103 4.1 0.4 1.0 OD2 E:ASP102 4.2 89.0 1.0 OD1 E:ASN103 4.3 0.6 1.0 NH1 E:ARG56 4.5 0.5 1.0 O2A E:ADP1001 4.6 0.9 1.0 N E:SER57 4.7 87.2 1.0 CG E:ASN103 4.7 99.7 1.0 O2B E:ADP1001 4.7 0.5 1.0 CA E:SER57 4.8 86.1 1.0 OD1 E:ASP102 5.0 89.8 1.0 CG E:ASP102 5.0 86.9 1.0

Magnesium binding site 2 out of 4 in the Dna Replication Regulation Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Dna Replication Regulation Protein within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg1002 b:68.5 occ:1.00 O F:HOH1102 2.1 82.2 1.0 O3B F:ADP1001 2.3 0.2 1.0 OG F:SER57 2.7 94.4 1.0 O2A F:ADP1001 3.1 0.6 1.0 PB F:ADP1001 3.5 0.9 1.0 CB F:SER57 3.6 87.3 1.0 O1B F:ADP1001 3.7 0.8 1.0 PA F:ADP1001 4.0 0.5 1.0 O3A F:ADP1001 4.1 0.7 1.0 OD2 F:ASP102 4.2 79.2 1.0 ND2 F:ASN103 4.3 0.2 1.0 O1A F:ADP1001 4.6 0.0 1.0 N F:SER57 4.8 73.9 1.0 OD1 F:ASN103 4.8 0.9 1.0 O2B F:ADP1001 4.8 98.5 1.0 CA F:SER57 4.8 77.8 1.0

Magnesium binding site 3 out of 4 in the Dna Replication Regulation Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Dna Replication Regulation Protein within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg1002 b:0.8 occ:1.00 O1B G:ADP1001 2.1 0.5 1.0 O G:HOH1101 2.1 89.9 1.0 O1A G:ADP1001 2.6 0.9 1.0 OG G:SER57 2.8 0.7 1.0 PB G:ADP1001 3.3 0.2 1.0 PA G:ADP1001 3.6 0.4 1.0 O3A G:ADP1001 3.7 0.9 1.0 O3B G:ADP1001 3.8 0.7 1.0 CB G:SER57 3.9 0.2 1.0 O2A G:ADP1001 4.1 0.3 1.0 NH1 G:ARG56 4.3 0.6 1.0 ND2 G:ASN103 4.3 0.9 1.0 OD2 G:ASP102 4.5 0.0 1.0 OD1 G:ASN103 4.5 0.1 1.0 O2B G:ADP1001 4.6 0.4 1.0 CG G:ASN103 4.9 0.0 1.0 N G:SER57 4.9 0.9 1.0

Magnesium binding site 4 out of 4 in the Dna Replication Regulation Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Dna Replication Regulation Protein within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg1002 b:75.2 occ:1.00 O H:HOH1101 2.3 85.7 1.0 OG H:SER57 2.6 76.7 1.0 O3A H:ADP1001 3.1 0.5 1.0 O2A H:ADP1001 3.1 0.7 1.0 O3B H:ADP1001 3.1 0.8 1.0 CB H:SER57 3.3 77.2 1.0 PB H:ADP1001 3.5 0.5 1.0 O2B H:ADP1001 3.5 0.4 1.0 PA H:ADP1001 3.7 0.7 1.0 OD2 H:ASP102 4.2 94.7 1.0 O H:HOH1102 4.4 89.3 1.0 O5' H:ADP1001 4.4 0.8 1.0 CA H:SER57 4.7 98.7 1.0 ND2 H:ASN103 4.7 90.0 1.0 N H:SER57 4.8 0.4 1.0 O1B H:ADP1001 4.9 0.6 1.0

J.Kim, Y.Cho. Replication Regulation Protein To Be Published.