Atomistry » Zinc » PDB 1p1q-1pe7 » 1p6o
Atomistry »
  Zinc »
    PDB 1p1q-1pe7 »
      1p6o »

Zinc 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:

Calcium (Ca) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc 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 Zinc atom.
In total 2 binding sites of Zinc 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 Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1p6o

Go back to Zinc Binding Sites List in 1p6o
Zinc 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 Zinc with other atoms in the Zn 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
A:Zn401

b:6.4
occ:1.00
 ND1 A:HIS62 2.0 7.6 1.0
O4 A:HPY411 2.0 7.4 1.0
SG A:CYS94 2.3 7.0 1.0
SG A:CYS91 2.3 7.1 1.0
CE1 A:HIS62 3.0 7.4 1.0
CG A:HIS62 3.1 7.5 1.0
C4 A:HPY411 3.1 7.4 1.0
CB A:CYS94 3.2 6.7 1.0
CB A:CYS91 3.4 7.0 1.0
CB A:HIS62 3.4 7.2 1.0
N3 A:HPY411 3.5 7.8 1.0
C5 A:HPY411 3.6 8.1 1.0
OE2 A:GLU64 3.7 7.1 1.0
N A:CYS91 3.8 7.1 1.0
N A:CYS94 3.9 6.2 1.0
C2 A:HPY411 3.9 8.2 1.0
C6 A:HPY411 4.1 7.9 1.0
NE2 A:HIS62 4.1 7.9 1.0
CA A:CYS91 4.1 6.8 1.0
N1 A:HPY411 4.2 8.1 1.0
CD2 A:HIS62 4.2 7.8 1.0
CA A:CYS94 4.2 6.0 1.0
CD A:GLU64 4.2 6.8 1.0
OE1 A:GLU64 4.2 8.0 1.0
CE A:MET93 4.3 9.9 1.0
C A:CYS91 4.7 5.9 1.0
O2 A:HPY411 4.7 8.1 1.0
CB A:MET93 4.7 6.8 1.0
O A:CYS91 4.8 6.7 1.0
C A:PRO90 4.9 6.7 1.0
CA A:HIS62 4.9 7.9 1.0
C A:MET93 4.9 6.0 1.0

Zinc binding site 2 out of 2 in 1p6o

Go back to Zinc Binding Sites List in 1p6o
Zinc 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 Zinc with other atoms in the Zn 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:Zn400

b:5.4
occ:1.00
 ND1 B:HIS262 2.0 6.2 1.0
O4 B:HPY410 2.1 6.1 1.0
SG B:CYS294 2.3 6.4 1.0
SG B:CYS291 2.3 6.0 1.0
CE1 B:HIS262 3.0 6.5 1.0
CG B:HIS262 3.1 6.0 1.0
C4 B:HPY410 3.2 6.7 1.0
CB B:CYS294 3.2 6.2 1.0
CB B:CYS291 3.4 6.0 1.0
CB B:HIS262 3.4 6.5 1.0
N3 B:HPY410 3.4 6.5 1.0
C5 B:HPY410 3.6 6.8 1.0
OE1 B:GLU264 3.8 6.4 1.0
N B:CYS291 3.8 5.5 1.0
N B:CYS294 3.9 5.6 1.0
C2 B:HPY410 3.9 6.5 1.0
C6 B:HPY410 4.0 6.8 1.0
NE2 B:HIS262 4.1 7.1 1.0
CA B:CYS291 4.2 5.5 1.0
CA B:CYS294 4.2 5.8 1.0
CD2 B:HIS262 4.2 7.0 1.0
N1 B:HPY410 4.2 6.4 1.0
CD B:GLU264 4.2 6.6 1.0
OE2 B:GLU264 4.3 6.8 1.0
CE B:MET293 4.3 9.5 1.0
C B:CYS291 4.7 5.2 1.0
O2 B:HPY410 4.7 6.8 1.0
CB B:MET293 4.7 6.7 1.0
O B:CYS291 4.8 6.0 1.0
C B:PRO290 4.9 5.7 1.0
C B:MET293 4.9 6.2 1.0
CA B:HIS262 4.9 6.6 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: Wed Oct 16 17:45:34 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy