Calcium in PDB 2imw: Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase

All present enzymatic activity of Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase:
2.7.7.7;

The structure of Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase, PDB code: 2imw was solved by H.Ling, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.73 / 2.05
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	98.057, 101.857, 52.380, 90.00, 90.00, 90.00
R / Rfree (%)	23 / 28.4

The binding sites of Calcium atom in the Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase (pdb code 2imw). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase, PDB code: 2imw:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ P:Ca406 b:41.7 occ:1.00 O1G P:DDS401 2.2 72.0 1.0 OD1 P:ASP7 2.3 37.9 1.0 OD2 P:ASP105 2.3 40.1 1.0 O P:PHE8 2.3 32.6 1.0 O2B P:DDS401 2.4 69.4 1.0 O P:HOH660 2.5 53.0 1.0 PB P:DDS401 3.4 70.5 1.0 CG P:ASP7 3.4 37.1 1.0 PG P:DDS401 3.4 71.9 1.0 CG P:ASP105 3.5 37.5 1.0 O3A P:DDS401 3.5 71.3 1.0 C P:PHE8 3.5 32.6 1.0 O2G P:DDS401 3.8 71.2 1.0 O P:HOH519 3.9 35.9 1.0 O3B P:DDS401 3.9 71.8 1.0 OD2 P:ASP7 3.9 40.6 1.0 N P:PHE8 4.1 33.0 1.0 NZ P:LYS159 4.2 55.2 1.0 OD1 P:ASP105 4.3 37.5 1.0 C P:ASP7 4.3 33.5 1.0 N P:TYR10 4.3 32.3 1.0 CA P:PHE8 4.4 32.6 1.0 CB P:ASP105 4.4 36.2 1.0 N P:ASP9 4.4 33.2 1.0 O P:HOH521 4.4 51.6 1.0 CA P:ASP9 4.4 33.5 1.0 O2A P:DDS401 4.5 71.9 1.0 C P:ASP9 4.6 33.1 1.0 CB P:ASP7 4.6 34.1 1.0 O P:ASP105 4.6 35.2 1.0 O P:ASP7 4.6 34.2 1.0 PA P:DDS401 4.7 71.9 1.0 N P:PHE11 4.7 30.2 1.0 O3G P:DDS401 4.8 71.9 1.0 O1B P:DDS401 4.8 69.7 1.0 CA P:ASP7 4.8 33.9 1.0 CB P:PHE8 5.0 31.2 1.0 CB P:PHE11 5.0 28.8 1.0 O P:HOH508 5.0 73.1 1.0 OE2 P:GLU106 5.0 53.0 1.0

Calcium binding site 2 out of 2 in the Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ P:Ca407 b:45.2 occ:1.00 O P:HOH669 2.2 47.4 1.0 O P:HOH663 2.3 50.1 1.0 O P:ALA181 2.3 42.0 1.0 O T:HOH193 2.5 43.7 1.0 O P:ILE186 2.5 40.8 1.0 O T:HOH50 2.8 45.2 1.0 C P:ALA181 3.5 41.8 1.0 C P:ILE186 3.7 40.5 1.0 CA P:GLY187 4.2 41.3 1.0 CA P:ALA181 4.4 42.0 1.0 N P:GLY187 4.4 40.9 1.0 OP1 T:DC1917 4.4 41.1 1.0 N P:ASP182 4.5 42.0 1.0 OP2 T:DC1917 4.5 43.4 1.0 CA P:ASP182 4.6 41.9 1.0 CB P:ALA181 4.6 41.8 1.0 C P:GLY187 4.7 42.2 1.0 O P:VAL183 4.7 39.8 1.0 CA P:ILE186 4.8 40.5 1.0 CB P:ILE186 4.9 40.7 1.0 O P:GLY187 4.9 41.8 1.0 P T:DC1917 5.0 42.2 1.0

K.A.Fiala, J.A.Brown, H.Ling, A.K.Kshetry, J.Zhang, J.S.Taylor, W.Yang, Z.Suo. Mechanism of Template-Independent Nucleotide Incorporation Catalyzed By A Template-Dependent Dna Polymerase. J.Mol.Biol. V. 365 590 2007.
ISSN: ISSN 0022-2836
PubMed: 17095011
DOI: 10.1016/J.JMB.2006.10.008