Calcium in PDB 2uvu: Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs

All present enzymatic activity of Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs:
2.7.7.7;

The structure of Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs, PDB code: 2uvu was solved by A.Irimia, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.26 / 2.70
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	95.131, 104.124, 52.941, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 27

The binding sites of Calcium atom in the Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs (pdb code 2uvu). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs, PDB code: 2uvu:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca3000 b:58.5 occ:1.00 O1A A:DGT1000 2.6 35.1 1.0 O A:HOH2071 2.7 29.0 1.0 OD1 A:ASP105 2.7 40.5 1.0 O P:HOH2015 2.9 26.4 1.0 OD2 A:ASP7 3.0 44.5 1.0 OD2 A:ASP105 3.3 36.7 1.0 OE1 A:GLU106 3.3 57.8 1.0 CG A:ASP105 3.4 40.2 1.0 C3' P:DA14 3.4 49.9 1.0 CD A:GLU106 3.5 53.8 1.0 CG A:GLU106 3.5 50.9 1.0 CA A:CA3001 3.6 39.4 1.0 O3' P:DA14 3.8 49.6 1.0 PA A:DGT1000 3.8 37.4 1.0 C5' P:DA14 3.9 53.2 1.0 CG A:ASP7 3.9 41.0 1.0 C5' A:DGT1000 3.9 31.1 1.0 O5' P:DA14 3.9 57.3 1.0 O5' A:DGT1000 4.0 35.6 1.0 OD1 A:ASP7 4.0 41.5 1.0 C4' P:DA14 4.1 51.1 1.0 O2A A:DGT1000 4.1 44.3 1.0 OG A:SER103 4.2 43.2 1.0 OP1 P:DA14 4.3 58.8 1.0 OE2 A:GLU106 4.3 55.1 1.0 C2' P:DA14 4.5 47.7 1.0 CB A:GLU106 4.6 46.8 1.0 O A:ASP105 4.7 38.5 1.0 P P:DA14 4.8 58.8 1.0 C A:ASP105 4.8 41.1 1.0 CB A:ASP105 4.8 39.1 1.0 O2B A:DGT1000 4.9 36.3 1.0 O2G A:DGT1000 4.9 44.9 1.0

Calcium binding site 2 out of 3 in the Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca3001 b:39.4 occ:1.00 O A:PHE8 2.4 36.3 1.0 O1A A:DGT1000 2.5 35.1 1.0 O2B A:DGT1000 2.5 36.3 1.0 OD2 A:ASP105 2.5 36.7 1.0 O2G A:DGT1000 2.5 44.9 1.0 OD2 A:ASP7 2.7 44.5 1.0 CG A:ASP7 3.3 41.0 1.0 C A:PHE8 3.5 36.2 1.0 CA A:CA3000 3.6 58.5 1.0 OD1 A:ASP7 3.6 41.5 1.0 CG A:ASP105 3.6 40.2 1.0 PB A:DGT1000 3.8 37.2 1.0 PG A:DGT1000 3.8 46.6 1.0 O A:HOH2071 3.9 29.0 1.0 PA A:DGT1000 3.9 37.4 1.0 N A:PHE8 4.0 40.0 1.0 NZ A:LYS159 4.1 55.7 1.0 C A:ASP7 4.1 42.9 1.0 O3G A:DGT1000 4.2 46.7 1.0 C5' A:DGT1000 4.2 31.1 1.0 O3B A:DGT1000 4.2 41.5 1.0 O3A A:DGT1000 4.2 39.2 1.0 OD1 A:ASP105 4.3 40.5 1.0 O A:ASP7 4.3 45.5 1.0 CA A:PHE8 4.3 36.6 1.0 CB A:ASP7 4.4 41.2 1.0 N A:ASP9 4.5 37.0 1.0 O5' A:DGT1000 4.6 35.6 1.0 CA A:ASP9 4.6 36.0 1.0 N A:TYR10 4.6 34.0 1.0 CA A:ASP7 4.6 41.8 1.0 CB A:ASP105 4.7 39.1 1.0 C A:ASP9 4.8 34.7 1.0 O A:ASP105 4.8 38.5 1.0 CB A:PHE8 4.9 33.9 1.0

Calcium binding site 3 out of 3 in the Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structures of Mutant DPO4 Dna Polymerases with 8- Oxog Containing Dna Template-Primer Constructs within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca3002 b:55.2 occ:1.00 O P:HOH2012 2.5 25.8 1.0 O A:ALA181 2.6 55.7 1.0 O P:HOH2011 2.6 33.4 1.0 O A:ILE186 2.8 41.4 1.0 O A:HOH2036 2.8 41.9 1.0 O A:HOH2035 3.0 62.3 1.0 C A:ALA181 3.5 55.0 1.0 C A:ILE186 3.9 41.7 1.0 N A:ASP182 4.3 53.3 1.0 CA A:ALA181 4.4 55.2 1.0 CA A:ASP182 4.4 51.4 1.0 OP1 P:DC13 4.5 49.1 1.0 CB A:ALA181 4.6 54.5 1.0 O A:VAL183 4.7 41.1 1.0 OP2 P:DC13 4.7 48.8 1.0 CA A:GLY187 4.7 41.7 1.0 C A:ASP182 4.8 48.2 1.0 N A:GLY187 4.8 41.1 1.0 N A:VAL183 4.9 46.0 1.0 CA A:ILE186 4.9 41.8 1.0 CB A:ILE186 4.9 41.1 1.0

R.L.Eoff, A.Irimia, K.C.Angel, M.Egli, F.P.Guengerich. Hydrogen Bonding of 7,8-Dihydro-8- Oxodeoxyguanosine with A Charged Residue in the Little Finger Domain Determines Miscoding Events in Sulfolobus Solfataricus Dna Polymerase DPO4. J.Biol.Chem. V. 282 19831 2007.
ISSN: ISSN 0021-9258
PubMed: 17468100
DOI: 10.1074/JBC.M702290200