Calcium in PDB 1ig9: Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase

All present enzymatic activity of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase:
2.7.7.7;

The structure of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase, PDB code: 1ig9 was solved by M.C.Franklin, J.Wang, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.75 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	80.787, 118.602, 127.997, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 25.8

The binding sites of Calcium atom in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase (pdb code 1ig9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase, PDB code: 1ig9:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:44.3 occ:1.00 OD1 A:ASP623 2.6 67.5 1.0 O A:LEU412 2.6 59.1 1.0 O1G A:TTP1005 2.6 48.5 1.0 OD2 A:ASP411 2.6 63.0 1.0 OD1 A:ASP411 2.7 55.9 1.0 O2B A:TTP1005 2.7 41.8 1.0 O2A A:TTP1005 2.8 49.6 1.0 CG A:ASP411 3.0 58.9 1.0 PB A:TTP1005 3.4 49.2 1.0 PG A:TTP1005 3.5 42.5 1.0 O A:HOH1176 3.5 0.6 1.0 O3B A:TTP1005 3.6 47.5 1.0 CG A:ASP623 3.6 64.7 1.0 O3A A:TTP1005 3.7 52.1 1.0 C A:LEU412 3.8 56.9 1.0 PA A:TTP1005 3.9 52.2 1.0 O2G A:TTP1005 4.0 50.1 1.0 CA A:CA1002 4.1 79.1 1.0 OD2 A:ASP623 4.1 64.8 1.0 N A:LEU412 4.3 56.7 1.0 CB A:ASP411 4.5 56.3 1.0 CA A:LEU412 4.6 57.2 1.0 O5' A:TTP1005 4.7 50.1 1.0 C5' A:TTP1005 4.7 40.9 1.0 CB A:ASP623 4.7 61.5 1.0 N A:THR413 4.7 57.7 1.0 O3G A:TTP1005 4.8 55.0 1.0 N A:SER414 4.8 46.2 1.0 O1B A:TTP1005 4.8 48.4 1.0 CA A:THR413 4.8 55.8 1.0 C A:ASP411 4.9 57.7 1.0

Calcium binding site 2 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:79.1 occ:1.00 O2A A:TTP1005 2.9 49.6 1.0 OD2 A:ASP411 3.0 63.0 1.0 OG A:SER624 3.0 69.8 1.0 OD2 A:ASP623 3.3 64.8 1.0 CG A:ASP411 4.0 58.9 1.0 PA A:TTP1005 4.1 52.2 1.0 CA A:CA1001 4.1 44.3 1.0 CG A:ASP623 4.2 64.7 1.0 CB A:SER624 4.2 55.4 1.0 OD1 A:ASP623 4.2 67.5 1.0 O1A A:TTP1005 4.3 55.1 1.0 C3' P:DOC115 4.4 51.1 1.0 O P:HOH298 4.5 82.2 1.0 O5' P:DOC115 4.6 52.2 1.0 OD1 A:ASP411 4.8 55.9 1.0 CB A:ASP411 4.8 56.3 1.0 O5' A:TTP1005 5.0 50.1 1.0

Calcium binding site 3 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1003 b:0.0 occ:1.00 O A:HOH1176 2.8 0.6 1.0 O A:HOH1283 3.1 85.8 1.0 O A:HOH1278 3.2 1.0 1.0 OE1 A:GLU686 3.3 90.2 1.0 OD2 A:ASP684 3.4 0.2 1.0 OE1 A:GLU716 3.5 84.9 1.0 OD1 A:ASP684 3.7 0.8 1.0 CD A:GLU716 3.8 83.3 1.0 CG A:ASP684 4.0 94.5 1.0 NZ A:LYS486 4.1 48.2 1.0 CG A:GLU716 4.1 75.8 1.0 CD A:GLU686 4.2 88.5 1.0 OE2 A:GLU686 4.3 93.9 1.0 OD1 A:ASP411 4.4 55.9 1.0 OE2 A:GLU716 4.5 86.6 1.0 OG1 A:THR413 4.7 66.3 1.0

Calcium binding site 4 out of 4 in the Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1004 b:99.0 occ:1.00 O A:HOH1224 2.9 76.4 1.0 O A:HOH1173 3.0 95.8 1.0 OE1 A:GLU116 3.0 65.2 1.0 OE2 A:GLU116 3.0 63.9 1.0 O A:HOH1058 3.1 76.5 1.0 O A:HOH1086 3.2 82.8 1.0 CD A:GLU116 3.4 66.0 1.0 O A:HOH1289 4.0 80.2 1.0 OD2 A:ASP114 4.6 68.1 1.0 O A:HOH1264 4.7 79.7 1.0 CG A:GLU116 4.8 58.3 1.0

M.C.Franklin, J.Wang, T.A.Steitz. Structure of the Replicating Complex of A Pol Alpha Family Dna Polymerase Cell(Cambridge,Mass.) V. 105 657 2001.
ISSN: ISSN 0092-8674
PubMed: 11389835
DOI: 10.1016/S0092-8674(01)00367-1