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Calcium in PDB 1p6o: The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms.

Enzymatic activity of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms.

All present enzymatic activity of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms.:
3.5.4.1;

Protein crystallography data

The structure of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms., PDB code: 1p6o was solved by G.C.Ireton, M.E.Black, B.L.Stoddard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 1.14
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.880, 70.417, 71.523, 90.00, 90.00, 90.00
R / Rfree (%) 11 / 15.2

Other elements in 1p6o:

The structure of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms. also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms. (pdb code 1p6o). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms., PDB code: 1p6o:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 1p6o

Go back to Calcium Binding Sites List in 1p6o
Calcium binding site 1 out of 2 in the The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca402

b:10.7
occ:1.00
OE1 B:GLU328 2.3 16.8 1.0
O B:HOH1237 2.3 23.8 1.0
O B:HOH1016 2.4 11.1 1.0
O B:HOH1060 2.4 12.3 1.0
CD B:GLU328 3.4 14.0 1.0
CG B:GLU328 4.0 12.6 1.0
OE2 B:GLU328 4.4 13.2 1.0
O B:HOH1101 4.5 18.7 1.0

Calcium binding site 2 out of 2 in 1p6o

Go back to Calcium Binding Sites List in 1p6o
Calcium binding site 2 out of 2 in the The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Crystal Structure of Yeast Cytosine Deaminase Bound to 4(R)-Hydroxyl-3,4-Dihydropyrimidine at 1.14 Angstroms. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca403

b:21.1
occ:1.00
OE1 A:GLN150 2.3 21.2 1.0
O B:HOH1392 2.3 33.2 1.0
O B:HOH1312 2.3 32.8 1.0
O A:HOH1311 2.5 22.6 1.0
OE1 B:GLU275 2.5 26.9 1.0
O A:HOH1231 2.5 19.3 1.0
OE2 B:GLU275 2.7 28.3 1.0
CD B:GLU275 3.0 25.3 1.0
CD A:GLN150 3.4 21.5 1.0
O A:HOH1139 4.1 15.6 1.0
CB A:GLN150 4.2 16.7 1.0
CG A:GLN150 4.3 19.0 1.0
O B:HOH1114 4.3 17.4 1.0
NE2 A:GLN150 4.4 28.6 1.0
CG B:GLU275 4.5 24.0 1.0
O B:HOH1368 4.5 42.6 1.0
O A:HOH1248 4.6 24.9 1.0
O A:GLU158 4.7 19.0 1.0
O A:GLN150 4.8 13.6 1.0
CA A:GLN150 4.9 15.2 1.0
O A:HOH1344 4.9 39.4 1.0

Reference:

G.C.Ireton, M.E.Black, B.L.Stoddard. The 1.14 A Crystal Structure of Yeast Cytosine Deaminase. Evolution of Nucleotide Salvage Enzymes and Implications For Genetic Chemotherapy. Structure V. 11 961 2003.
ISSN: ISSN 0969-2126
PubMed: 12906827
DOI: 10.1016/S0969-2126(03)00153-9
Page generated: Sat Dec 12 03:13:34 2020

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