Atomistry » Zinc » PDB 1oj7-1p1r » 1ox7
Atomistry »
  Zinc »
    PDB 1oj7-1p1r »
      1ox7 »

Zinc in PDB 1ox7: Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound

Enzymatic activity of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound

All present enzymatic activity of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound:
3.5.4.1;

Protein crystallography data

The structure of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound, PDB code: 1ox7 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) 19.83 / 1.43
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 54.491, 70.467, 71.941, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 17.9

Other elements in 1ox7:

The structure of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound (pdb code 1ox7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound, PDB code: 1ox7:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 1ox7

Go back to Zinc Binding Sites List in 1ox7
Zinc binding site 1 out of 4 in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:5.8
occ:1.00
 O A:HOH550 1.8 5.4 1.0
O A:HOH552 1.8 7.7 1.0
O A:HOH551 2.0 12.5 1.0
O A:HOH549 2.0 13.0 1.0
ZN A:ZN402 3.2 5.2 1.0
OE1 A:GLU64 3.6 6.8 1.0
OE2 A:GLU64 3.6 8.7 1.0
O A:HOH553 3.7 8.9 1.0
ND1 A:HIS62 3.7 4.8 1.0
CD A:GLU64 4.1 7.0 1.0
N A:CYS91 4.1 4.1 1.0
CE1 A:HIS62 4.3 6.3 1.0
CD1 A:ILE33 4.3 6.6 1.0
CG A:HIS62 4.4 5.0 1.0
CB A:CYS91 4.5 5.9 1.0
O A:SER89 4.5 5.2 1.0
CB A:HIS62 4.6 4.3 1.0
SG A:CYS94 4.6 4.8 1.0
CA A:PRO90 4.6 4.7 1.0
CG2 A:ILE33 4.7 6.0 1.0
SG A:CYS91 4.8 5.3 1.0
CE2 A:PHE114 4.8 6.3 1.0
C A:PRO90 4.9 3.7 1.0
CA A:CYS91 4.9 4.6 1.0
OD2 A:ASP155 5.0 9.8 1.0

Zinc binding site 2 out of 4 in 1ox7

Go back to Zinc Binding Sites List in 1ox7
Zinc binding site 2 out of 4 in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:5.2
occ:1.00
 O A:HOH550 2.0 5.4 1.0
ND1 A:HIS62 2.1 4.8 1.0
SG A:CYS94 2.3 4.8 1.0
SG A:CYS91 2.3 5.3 1.0
CE1 A:HIS62 3.0 6.3 1.0
CG A:HIS62 3.1 5.0 1.0
ZN A:ZN401 3.2 5.8 1.0
CB A:CYS94 3.3 4.3 1.0
CB A:CYS91 3.3 5.9 1.0
CB A:HIS62 3.5 4.3 1.0
O A:HOH552 3.6 7.7 1.0
N A:CYS91 3.8 4.1 1.0
N A:CYS94 3.8 3.9 1.0
O A:HOH549 4.1 13.0 1.0
CA A:CYS91 4.1 4.6 1.0
NE2 A:HIS62 4.1 7.2 1.0
CA A:CYS94 4.2 3.6 1.0
CE A:MSE93 4.2 7.6 1.0
CD2 A:HIS62 4.2 5.6 1.0
OE1 A:GLU64 4.3 6.8 1.0
OE2 A:GLU64 4.4 8.7 1.0
CD A:GLU64 4.5 7.0 1.0
C A:CYS91 4.7 4.0 1.0
CB A:MSE93 4.8 6.1 1.0
O A:CYS91 4.8 4.3 1.0
O A:HOH551 4.9 12.5 1.0
C A:MSE93 4.9 3.9 1.0
C A:PRO90 5.0 3.7 1.0

Zinc binding site 3 out of 4 in 1ox7

Go back to Zinc Binding Sites List in 1ox7
Zinc binding site 3 out of 4 in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn400

b:4.5
occ:1.00
 O B:HOH507 2.0 4.7 1.0
ND1 B:HIS262 2.1 3.5 1.0
SG B:CYS294 2.3 4.4 1.0
SG B:CYS291 2.3 4.1 1.0
CE1 B:HIS262 3.0 4.0 1.0
CG B:HIS262 3.1 3.4 1.0
CB B:CYS294 3.2 4.0 1.0
ZN B:ZN403 3.2 4.8 1.0
CB B:CYS291 3.4 4.1 1.0
CB B:HIS262 3.5 3.9 1.0
O B:HOH508 3.5 5.9 1.0
N B:CYS291 3.8 4.1 1.0
N B:CYS294 3.8 3.9 1.0
O B:HOH504 4.1 13.7 1.0
CA B:CYS294 4.1 4.3 1.0
CA B:CYS291 4.1 3.3 1.0
NE2 B:HIS262 4.2 5.7 1.0
CE B:MSE293 4.2 4.7 1.0
CD2 B:HIS262 4.2 5.1 1.0
OE1 B:GLU264 4.3 5.6 1.0
OE2 B:GLU264 4.5 8.5 1.0
CD B:GLU264 4.6 5.6 1.0
C B:CYS291 4.7 3.0 1.0
CB B:MSE293 4.7 4.5 1.0
O B:CYS291 4.8 3.8 1.0
O B:HOH506 4.9 12.1 1.0
C B:MSE293 4.9 3.8 1.0
C B:PRO290 5.0 4.1 1.0

Zinc binding site 4 out of 4 in 1ox7

Go back to Zinc Binding Sites List in 1ox7
Zinc binding site 4 out of 4 in the Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Yeast Cytosine Deaminase Apo-Enzyme: Inorganic Zinc Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:4.8
occ:1.00
 O B:HOH508 1.7 5.9 1.0
O B:HOH507 1.7 4.7 1.0
O B:HOH504 2.0 13.7 1.0
O B:HOH506 2.0 12.1 1.0
ZN B:ZN400 3.2 4.5 1.0
OE1 B:GLU264 3.6 5.6 1.0
OE2 B:GLU264 3.6 8.5 1.0
O B:HOH505 3.8 6.4 1.0
ND1 B:HIS262 3.8 3.5 1.0
CD B:GLU264 4.1 5.6 1.0
N B:CYS291 4.1 4.1 1.0
CD1 B:ILE233 4.2 6.5 1.0
CE1 B:HIS262 4.3 4.0 1.0
CG B:HIS262 4.4 3.4 1.0
CB B:CYS291 4.5 4.1 1.0
O B:SER289 4.5 5.3 1.0
SG B:CYS294 4.6 4.4 1.0
CB B:HIS262 4.7 3.9 1.0
CA B:PRO290 4.7 4.0 1.0
CG2 B:ILE233 4.7 5.2 1.0
SG B:CYS291 4.8 4.1 1.0
CE1 B:PHE314 4.8 5.0 1.0
C B:PRO290 4.9 4.1 1.0
CA B:CYS291 4.9 3.3 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 17:35:03 2024

Last articles

Na in 3CC9
Na in 3CBC
Na in 3CBT
Na in 3C9F
Na in 3CB8
Na in 3C7O
Na in 3C88
Na in 3C7X
Na in 3C7T
Na in 3C87
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy