Manganese in PDB 7rpo: Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna

All present enzymatic activity of Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna:
6.5.1.1;

The binding sites of Manganese atom in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna (pdb code 7rpo). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna, PDB code: 7rpo:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna within 5.0Å range: probe atom residue distance (Å) B Occ X:Mn101 b:90.6 occ:1.00 O E:GLY60 1.8 71.4 1.0 O3' X:DG20 2.2 82.5 1.0 C4' X:DG20 2.2 82.5 1.0 C3' X:DG20 2.4 82.5 1.0 C E:GLY60 2.5 71.4 1.0 C5' X:DG20 2.9 82.5 1.0 CA E:GLY60 3.2 71.4 1.0 OP1 X:DC21 3.3 87.5 1.0 P X:DC21 3.4 87.5 1.0 O4' X:DG20 3.5 82.5 1.0 C E:ILE61 3.5 62.9 1.0 N E:ILE61 3.5 62.9 1.0 N E:GLY62 3.7 75.0 1.0 O E:ILE61 3.7 62.9 1.0 C2' X:DG20 3.9 82.5 1.0 CA E:GLY62 4.0 75.0 1.0 CA E:ILE61 4.0 62.9 1.0 O5' X:DG20 4.0 82.5 1.0 O E:LEU59 4.1 68.2 1.0 C1' X:DG20 4.1 82.5 1.0 N E:GLY60 4.3 71.4 1.0 O5' X:DC21 4.4 87.5 1.0 OP2 X:DC21 4.4 87.5 1.0 C E:LEU59 4.7 68.2 1.0 C5' X:DC21 4.7 87.5 1.0

Manganese binding site 2 out of 4 in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna within 5.0Å range: probe atom residue distance (Å) B Occ X:Mn102 b:108.0 occ:1.00 OP2 X:DC21 2.7 87.5 1.0 OP1 X:DC21 3.3 87.5 1.0 P X:DC21 3.3 87.5 1.0 O5' X:DC21 3.9 87.5 1.0 O E:GLU167 4.4 58.2 1.0 O3' X:DG20 4.8 82.5 1.0 OP2 X:DG22 5.0 87.4 1.0

Manganese binding site 3 out of 4 in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna within 5.0Å range: probe atom residue distance (Å) B Occ E:Mn702 b:104.7 occ:1.00 OE2 E:GLU58 2.4 70.8 1.0 CD E:GLU58 3.4 70.8 1.0 OD2 E:ASP52 3.5 54.9 1.0 CG E:ASP52 3.7 54.9 1.0 OP1 X:DG22 3.7 87.4 1.0 OE1 E:GLU58 3.7 70.8 1.0 CB E:ASP52 4.1 54.9 1.0 OD1 E:ASP52 4.2 54.9 1.0 CG E:GLU58 4.6 70.8 1.0 P X:DG22 4.9 87.4 1.0

Manganese binding site 4 out of 4 in the Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Archaeal Dna Ligase and Heterotrimeric Pcna in Complex with Non- Ligatable Dna within 5.0Å range: probe atom residue distance (Å) B Occ E:Mn703 b:101.8 occ:1.00 O1P E:AMP701 1.8 85.5 1.0 OE2 E:GLU409 1.8 99.0 1.0 CD E:GLU409 2.8 99.0 1.0 P E:AMP701 3.1 85.5 1.0 OE1 E:GLU409 3.2 99.0 1.0 OD1 E:ASP262 3.4 91.3 1.0 NZ E:LYS260 3.7 93.9 1.0 O5' E:AMP701 3.8 85.5 1.0 CG E:GLU409 4.1 99.0 1.0 O2P E:AMP701 4.3 85.5 1.0 CG E:ASP262 4.6 91.3 1.0

A.Sverzhinsky, A.E.Tomkinson, J.M.Pascal. Cryo-Em Structures and Biochemical Insights Into Heterotrimeric Pcna Regulation of Dna Ligase To Be Published.