Calcium in PDB 8oja: Hsv-1 Dna Polymerase-Processivity Factor Complex in Exonuclease State

All present enzymatic activity of Hsv-1 Dna Polymerase-Processivity Factor Complex in Exonuclease State:
2.7.7.7; 3.1.26.4;

The binding sites of Calcium atom in the Hsv-1 Dna Polymerase-Processivity Factor Complex in Exonuclease State (pdb code 8oja). 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-Processivity Factor Complex in Exonuclease State, PDB code: 8oja:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Hsv-1 Dna Polymerase-Processivity Factor Complex in 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-Processivity Factor Complex in Exonuclease State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1301 b:34.1 occ:1.00 O A:HOH1408 2.1 48.7 1.0 O A:TYR465 2.4 22.2 1.0 O C:HOH101 2.4 28.6 1.0 OD1 A:ASP471 2.5 20.8 1.0 O A:HOH1538 2.5 39.3 1.0 OD1 A:ASP368 2.6 27.0 1.0 OD2 A:ASP471 2.7 17.6 1.0 O A:HOH1463 2.8 20.2 1.0 CG A:ASP471 3.0 17.4 1.0 O A:HOH1405 3.0 28.5 1.0 CG A:ASP368 3.5 29.5 1.0 C A:TYR465 3.6 18.2 1.0 C4' C:DA23 3.9 95.8 1.0 O3' C:DA23 4.0 95.2 1.0 OD2 A:ASP368 4.2 34.4 1.0 N A:TYR465 4.3 16.4 1.0 CB A:ASP368 4.3 21.1 1.0 CA A:CA1302 4.3 62.3 1.0 CG2 A:ILE467 4.4 14.5 1.0 CA A:ASP368 4.4 15.9 1.0 CA A:TYR465 4.4 18.0 1.0 C3' C:DA23 4.4 92.2 1.0 O A:HOH1406 4.4 58.0 1.0 CB A:ASP471 4.5 14.3 1.0 O A:HOH1401 4.5 27.8 1.0 C5' C:DA23 4.5 102.8 1.0 C A:ASN466 4.5 17.1 1.0 N A:ILE467 4.6 15.0 1.0 N A:ASN466 4.7 18.3 1.0 O A:ASN466 4.7 16.8 1.0 CB A:TYR465 4.7 18.8 1.0 O4' C:DA23 4.7 90.5 1.0 C2' C:DA23 4.7 95.9 1.0 N A:ILE369 4.8 14.4 1.0 O A:PHE367 4.8 14.9 1.0 CB A:ASN466 4.9 25.9 1.0 CA A:ASN466 4.9 19.8 1.0 OD2 A:ASP581 4.9 57.4 1.0 CA A:ILE467 5.0 16.1 1.0

Calcium binding site 2 out of 2 in the Hsv-1 Dna Polymerase-Processivity Factor Complex in 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-Processivity Factor Complex in Exonuclease State within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1302 b:62.3 occ:1.00 OD2 A:ASP368 2.4 34.4 1.0 O A:HOH1402 2.4 29.3 1.0 OD1 A:ASP368 2.5 27.0 1.0 O A:ILE369 2.5 14.6 1.0 O5' C:AS24 2.6 99.0 1.0 O C:HOH101 2.6 28.6 1.0 OE2 A:GLU370 2.6 52.4 1.0 O A:HOH1405 2.6 28.5 1.0 O3' C:DA23 2.6 95.2 1.0 CG A:ASP368 2.7 29.5 1.0 OE1 A:GLU370 2.7 49.7 1.0 P C:AS24 2.8 100.5 1.0 CD A:GLU370 2.9 44.2 1.0 S2P C:AS24 3.0 115.6 1.0 C5' C:AS24 3.1 88.3 1.0 C A:ILE369 3.6 15.4 1.0 O A:HOH1403 3.8 45.6 1.0 OD2 A:ASP581 3.9 57.4 1.0 C3' C:DA23 4.0 92.2 1.0 N A:ILE369 4.1 14.4 1.0 O A:HOH1406 4.1 58.0 1.0 CB A:ASP368 4.2 21.1 1.0 CG A:GLU370 4.2 35.1 1.0 OP1 C:AS24 4.3 104.2 1.0 CA A:CA1301 4.3 34.1 1.0 O A:HOH1538 4.4 39.3 1.0 C4' C:AS24 4.5 84.9 1.0 N A:GLU370 4.5 16.0 1.0 CA A:ILE369 4.5 14.7 1.0 C A:ASP368 4.6 14.4 1.0 CA A:GLU370 4.6 19.6 1.0 OD2 A:ASP471 4.7 17.6 1.0 C2' C:DA23 4.7 95.9 1.0 O A:HOH1408 4.9 48.7 1.0 CA A:ASP368 4.9 15.9 1.0 C4' C:DA23 4.9 95.8 1.0 C3' C:AS24 4.9 86.2 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.