Calcium in PDB 8ojc: Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State

All present enzymatic activity of Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State:
2.7.7.7; 3.1.26.4;

The binding sites of Calcium atom in the Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State (pdb code 8ojc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State, PDB code: 8ojc:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1301 b:78.4 occ:1.00 O A:HOH1454 2.1 57.4 1.0 O A:HOH1440 2.5 17.0 1.0 O A:TYR465 2.5 23.7 1.0 OD1 A:ASP368 2.6 48.8 1.0 OD2 A:ASP471 2.9 28.6 1.0 OD1 A:ASP471 2.9 27.5 1.0 CG A:ASP471 3.2 23.2 1.0 O A:HOH1564 3.3 38.8 1.0 CG A:ASP368 3.5 48.7 1.0 C A:TYR465 3.6 19.1 1.0 N A:TYR465 4.0 19.4 1.0 CB A:ASP368 4.1 32.7 1.0 CG2 A:ILE467 4.2 24.3 1.0 CA A:ASP368 4.2 30.1 1.0 CA A:TYR465 4.3 17.6 1.0 O3' C:DA23 4.3 122.1 1.0 O A:HOH1581 4.4 34.3 1.0 OD2 A:ASP368 4.5 66.2 1.0 O A:PHE367 4.5 31.0 1.0 CB A:TYR465 4.5 17.0 1.0 N A:ILE467 4.5 21.1 1.0 C A:ASN466 4.6 21.1 1.0 CB A:ASP471 4.7 22.2 1.0 C4' C:DA23 4.7 102.3 1.0 N A:ASN466 4.7 20.1 1.0 CA A:ILE467 4.8 22.9 1.0 N A:ILE369 4.9 23.8 1.0 O A:ASN466 4.9 22.7 1.0 CA A:ASN466 5.0 22.7 1.0 S2P C:AS24 5.0 135.2 1.0

Calcium binding site 2 out of 2 in the Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Hsv-1 Dna Polymerase Active Site in Alternative Exonuclease State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1302 b:103.1 occ:1.00 OD2 A:ASP368 1.8 66.2 1.0 S2P C:AS24 2.5 135.2 1.0 OE2 A:GLU370 2.6 71.0 1.0 CG A:ASP368 2.8 48.7 1.0 OD2 A:ASP581 3.0 77.9 1.0 OD1 A:ASP368 3.2 48.8 1.0 O A:HOH1564 3.7 38.8 1.0 O A:HOH1403 3.7 52.9 1.0 CD A:GLU370 3.8 58.3 1.0 O5' C:AS24 3.8 136.2 1.0 P C:AS24 3.9 136.8 1.0 O A:ILE369 3.9 24.3 1.0 CG A:ASP581 4.1 60.5 1.0 CB A:ASP368 4.2 32.7 1.0 CB A:ASP581 4.5 39.4 1.0 CG A:GLU370 4.5 46.9 1.0 O3' C:DA23 4.6 122.1 1.0 OH A:TYR577 4.7 44.7 0.5 O A:HOH1435 4.7 41.7 1.0 CE2 A:TYR577 4.7 41.5 0.5 O C:HOH103 4.7 33.4 1.0 OE1 A:GLU370 4.7 60.3 1.0 C A:ILE369 4.8 20.9 1.0 CZ A:TYR577 4.9 39.9 0.5 SG A:CYS578 4.9 51.8 1.0 C5' C:AS24 4.9 132.1 1.0

E.Gustavsson, K.Grunewald, P.Elias, B.M.Hallberg. Dynamics of the Herpes Simplex Virus Dna Polymerase Holoenzyme During Dna Synthesis and Proof-Reading Revealed By Cryo-Em To Be Published.