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 / R_free (%)*	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

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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

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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: Thu Jul 11 13:39:37 2024

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