Atomistry » Zinc » PDB 4lev-4lmy » 4lfy
Atomistry »
  Zinc »
    PDB 4lev-4lmy »
      4lfy »

Zinc in PDB 4lfy: Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315

Enzymatic activity of Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315

All present enzymatic activity of Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315:
3.5.2.3;

Protein crystallography data

The structure of Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315, PDB code: 4lfy was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.00 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.480, 89.870, 153.390, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 18.7

Other elements in 4lfy:

The structure of Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315 also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315 (pdb code 4lfy). 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 A Dihydroorotase From Burkholderia Cenocepacia J2315, PDB code: 4lfy:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4lfy

Go back to Zinc Binding Sites List in 4lfy
Zinc binding site 1 out of 4 in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315


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 A Dihydroorotase From Burkholderia Cenocepacia J2315 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:10.7
occ:0.75
 O A:HOH656 2.0 17.5 1.0
OQ1 A:KCX117 2.1 15.0 1.0
NE2 A:HIS33 2.1 11.0 1.0
OD1 A:ASP268 2.1 10.7 1.0
NE2 A:HIS31 2.2 10.2 1.0
CX A:KCX117 3.0 16.8 1.0
CE1 A:HIS33 3.1 11.1 1.0
CD2 A:HIS33 3.1 10.3 1.0
CG A:ASP268 3.1 11.7 1.0
CE1 A:HIS31 3.1 10.6 1.0
CD2 A:HIS31 3.1 9.7 1.0
ZN A:ZN402 3.4 14.4 0.8
OQ2 A:KCX117 3.5 14.6 1.0
OD2 A:ASP268 3.6 11.8 1.0
NZ A:KCX117 4.1 16.1 1.0
ND1 A:HIS33 4.2 10.0 1.0
ND1 A:HIS31 4.2 10.3 1.0
CD2 A:HIS192 4.2 11.2 1.0
CG A:HIS33 4.3 9.6 1.0
CG A:HIS31 4.3 9.5 1.0
NE2 A:HIS192 4.3 12.2 1.0
CB A:ASP268 4.3 10.1 1.0
CG A:MET57 4.5 11.8 1.0
O A:HOH736 4.7 33.1 1.0
OH A:TYR119 4.7 21.9 1.0
CA A:ASP268 4.8 10.0 1.0
O A:HOH590 5.0 26.0 1.0

Zinc binding site 2 out of 4 in 4lfy

Go back to Zinc Binding Sites List in 4lfy
Zinc binding site 2 out of 4 in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315


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 A Dihydroorotase From Burkholderia Cenocepacia J2315 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:14.4
occ:0.75
 OQ2 A:KCX117 1.8 14.6 1.0
NE2 A:HIS192 2.1 12.2 1.0
O A:HOH656 2.1 17.5 1.0
ND1 A:HIS154 2.2 13.6 1.0
CX A:KCX117 2.9 16.8 1.0
CE1 A:HIS154 3.0 14.0 1.0
CE1 A:HIS192 3.0 11.8 1.0
CD2 A:HIS192 3.1 11.2 1.0
OQ1 A:KCX117 3.2 15.0 1.0
CG A:HIS154 3.3 13.6 1.0
ZN A:ZN401 3.4 10.7 0.8
CB A:HIS154 3.7 12.8 1.0
O A:HOH736 3.9 33.1 1.0
CE1 A:HIS31 3.9 10.6 1.0
NZ A:KCX117 4.1 16.1 1.0
ND1 A:HIS192 4.1 10.9 1.0
NE2 A:HIS154 4.1 15.1 1.0
NE2 A:HIS31 4.1 10.2 1.0
CG A:HIS192 4.2 10.8 1.0
CD2 A:HIS154 4.3 15.8 1.0
O A:LEU240 4.4 19.9 1.0
CE1 A:TYR119 4.5 27.0 1.0
OD2 A:ASP268 4.5 11.8 1.0
CE A:KCX117 4.5 15.7 1.0
CA A:HIS154 4.6 11.0 1.0
OD1 A:ASP268 4.7 10.7 1.0
CG A:ASP268 4.9 11.7 1.0
CD1 A:TYR119 4.9 23.8 1.0

Zinc binding site 3 out of 4 in 4lfy

Go back to Zinc Binding Sites List in 4lfy
Zinc binding site 3 out of 4 in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315


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 A Dihydroorotase From Burkholderia Cenocepacia J2315 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:11.8
occ:0.75
 OQ2 B:KCX117 2.0 15.9 1.0
O B:HOH636 2.0 20.4 1.0
OD1 B:ASP268 2.1 13.3 1.0
NE2 B:HIS33 2.1 12.2 1.0
NE2 B:HIS31 2.2 12.7 1.0
CX B:KCX117 3.0 17.0 1.0
CE1 B:HIS33 3.1 12.5 1.0
CD2 B:HIS33 3.1 12.0 1.0
CG B:ASP268 3.1 13.2 1.0
CE1 B:HIS31 3.2 12.6 1.0
CD2 B:HIS31 3.2 11.8 1.0
ZN B:ZN402 3.4 15.0 0.8
OQ1 B:KCX117 3.4 15.4 1.0
OD2 B:ASP268 3.6 13.8 1.0
NZ B:KCX117 4.1 16.9 1.0
ND1 B:HIS33 4.2 12.4 1.0
CD2 B:HIS192 4.2 12.5 1.0
CG B:HIS33 4.2 12.4 1.0
NE2 B:HIS192 4.3 12.9 1.0
ND1 B:HIS31 4.3 12.1 1.0
CB B:ASP268 4.3 12.0 1.0
CG B:HIS31 4.3 11.5 1.0
OH B:TYR119 4.6 21.9 1.0
CG B:MET57 4.7 13.9 1.0
O B:HOH652 4.7 34.3 1.0
CA B:ASP268 4.7 11.2 1.0
O B:HOH588 4.9 25.3 1.0
CE1 B:TYR119 5.0 25.5 1.0

Zinc binding site 4 out of 4 in 4lfy

Go back to Zinc Binding Sites List in 4lfy
Zinc binding site 4 out of 4 in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315


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 A Dihydroorotase From Burkholderia Cenocepacia J2315 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:15.0
occ:0.75
 OQ1 B:KCX117 1.9 15.4 1.0
O B:HOH636 1.9 20.4 1.0
NE2 B:HIS192 2.1 12.9 1.0
ND1 B:HIS154 2.1 14.3 1.0
CX B:KCX117 2.8 17.0 1.0
CE1 B:HIS192 3.0 12.3 1.0
CE1 B:HIS154 3.0 15.9 1.0
OQ2 B:KCX117 3.1 15.9 1.0
CD2 B:HIS192 3.1 12.5 1.0
CG B:HIS154 3.2 14.2 1.0
ZN B:ZN401 3.4 11.8 0.8
CB B:HIS154 3.6 13.1 1.0
NZ B:KCX117 4.0 16.9 1.0
CE1 B:HIS31 4.0 12.6 1.0
NE2 B:HIS154 4.1 16.3 1.0
ND1 B:HIS192 4.1 12.2 1.0
NE2 B:HIS31 4.2 12.7 1.0
CG B:HIS192 4.2 11.1 1.0
CD2 B:HIS154 4.3 16.2 1.0
CE1 B:TYR119 4.3 25.5 1.0
CE B:KCX117 4.5 16.5 1.0
OD2 B:ASP268 4.5 13.8 1.0
O B:LEU240 4.5 25.5 1.0
CA B:HIS154 4.5 12.2 1.0
OD1 B:ASP268 4.6 13.3 1.0
CD1 B:TYR119 4.8 24.0 1.0
CG B:ASP268 4.9 13.2 1.0

Reference:

C.M.Lukacs, J.W.Fairman, T.E.Edwards, D.Lorimer. Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315 To Be Published.
Page generated: Sun Oct 27 01:50:21 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy