Atomistry » Calcium » PDB 4l1i-4lls » 4lfy
Atomistry »
  Calcium »
    PDB 4l1i-4lls »
      4lfy »

Calcium 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:

Zinc (Zn) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium 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 Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of A Dihydroorotase From Burkholderia Cenocepacia J2315, PDB code: 4lfy:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4lfy

Go back to Calcium Binding Sites List in 4lfy
Calcium 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 Calcium with other atoms in the Ca 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:Ca404

b:25.0
occ:1.00
 NH1 B:ARG225 3.2 13.3 1.0
O B:HOH527 3.2 9.2 1.0
O A:HOH737 3.3 38.3 1.0
NH2 A:ARG245 3.4 16.2 1.0
O B:HOH610 3.4 22.4 1.0
NE B:ARG245 3.5 16.0 1.0
NH2 A:ARG225 3.5 14.7 1.0
NH2 B:ARG225 3.6 13.8 1.0
CZ B:ARG225 3.7 13.2 1.0
CA B:CA404 3.8 26.9 1.0
CD B:ARG245 3.9 15.4 1.0
CG B:ARG245 4.0 15.5 1.0
CB B:PHE165 4.1 12.2 1.0
CZ A:ARG245 4.2 16.0 1.0
NE A:ARG245 4.2 15.5 1.0
NH1 A:ARG225 4.4 14.6 1.0
CZ A:ARG225 4.4 14.1 1.0
CZ B:ARG245 4.5 16.4 1.0
CG B:PHE165 4.6 12.2 1.0
NH2 B:ARG245 4.7 17.4 1.0
O B:HOH514 4.9 14.7 1.0
NE B:ARG225 4.9 12.7 1.0
O B:HOH567 5.0 24.4 1.0

Calcium binding site 2 out of 4 in 4lfy

Go back to Calcium Binding Sites List in 4lfy
Calcium 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 Calcium with other atoms in the Ca 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:Ca405

b:30.5
occ:1.00
 O B:HOH689 3.0 36.7 1.0
O A:HOH738 3.2 40.5 1.0
NH1 A:ARG245 3.4 15.8 1.0
CB A:ARG245 3.6 14.1 1.0
N A:GLU246 3.8 15.9 1.0
O B:HOH633 3.8 22.1 1.0
CG A:ARG245 3.8 15.0 1.0
CD A:ARG245 3.9 15.9 1.0
CG2 A:THR247 3.9 24.0 1.0
N A:THR247 4.0 17.4 1.0
CB A:GLU246 4.0 17.0 1.0
CB B:ASP163 4.2 14.9 1.0
CA A:GLU246 4.3 16.2 1.0
CA A:ARG245 4.4 13.8 1.0
C A:ARG245 4.4 14.6 1.0
OG1 A:THR247 4.4 22.4 1.0
CZ A:ARG245 4.5 16.0 1.0
OD1 B:ASP163 4.6 14.5 1.0
C A:GLU246 4.6 16.0 1.0
CB A:THR247 4.6 21.1 1.0
NE A:ARG245 4.7 15.5 1.0
O B:HOH615 4.7 22.2 1.0
CG B:ASP163 4.7 15.3 1.0
O B:HOH608 4.8 21.2 1.0
CA A:THR247 4.9 18.4 1.0
OD2 B:ASP166 5.0 14.4 1.0

Calcium binding site 3 out of 4 in 4lfy

Go back to Calcium Binding Sites List in 4lfy
Calcium 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 Calcium with other atoms in the Ca 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:Ca404

b:26.9
occ:1.00
 NH1 A:ARG225 3.1 14.6 1.0
O A:HOH501 3.2 10.8 1.0
O A:HOH737 3.2 38.3 1.0
NH2 B:ARG245 3.3 17.4 1.0
O A:HOH588 3.4 25.3 1.0
NH2 B:ARG225 3.5 13.8 1.0
NE A:ARG245 3.5 15.5 1.0
NH2 A:ARG225 3.7 14.7 1.0
CZ A:ARG225 3.7 14.1 1.0
CA A:CA404 3.8 25.0 1.0
CD A:ARG245 3.9 15.9 1.0
CB A:PHE165 4.0 10.9 1.0
CG A:ARG245 4.2 15.0 1.0
CZ B:ARG245 4.2 16.4 1.0
NE B:ARG245 4.3 16.0 1.0
CZ B:ARG225 4.4 13.2 1.0
NH1 B:ARG225 4.4 13.3 1.0
CG A:PHE165 4.5 11.1 1.0
CZ A:ARG245 4.6 16.0 1.0
O A:HOH605 4.8 16.0 1.0
NH2 A:ARG245 4.8 16.2 1.0
NE A:ARG225 4.9 13.7 1.0
CD2 A:PHE165 5.0 11.2 1.0

Calcium binding site 4 out of 4 in 4lfy

Go back to Calcium Binding Sites List in 4lfy
Calcium 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 Calcium with other atoms in the Ca 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:Ca405

b:24.4
occ:1.00
 O B:HOH687 2.9 33.0 1.0
O A:HOH573 2.9 28.4 1.0
O A:HOH591 3.3 26.7 1.0
NH1 B:ARG245 3.4 16.2 1.0
CG2 B:THR247 3.6 17.9 1.0
CB B:ARG245 3.6 14.7 1.0
N B:THR247 3.7 14.6 1.0
N B:GLU246 3.8 14.7 1.0
CD B:ARG245 3.9 15.4 1.0
CB B:GLU246 4.0 15.2 1.0
CG B:ARG245 4.0 15.5 1.0
OG1 B:THR247 4.1 17.9 1.0
O B:HOH686 4.3 30.9 1.0
CA B:GLU246 4.3 14.2 1.0
CB A:ASP163 4.3 14.0 1.0
O A:HOH541 4.3 16.3 1.0
CB B:THR247 4.4 16.8 1.0
C B:ARG245 4.5 13.8 1.0
CZ B:ARG245 4.5 16.4 1.0
CA B:ARG245 4.5 13.9 1.0
C B:GLU246 4.5 14.9 1.0
NE B:ARG245 4.6 16.0 1.0
CA B:THR247 4.7 15.2 1.0
O A:HOH561 4.7 22.3 1.0
O A:HOH592 4.8 18.4 1.0
OD1 A:ASP163 4.8 13.1 1.0
CG A:ASP163 4.9 13.7 1.0
CG B:GLU246 5.0 15.8 1.0
OD2 A:ASP166 5.0 13.0 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 Jul 14 09:30:00 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy