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Zinc in PDB 4nu7: 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.

Enzymatic activity of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.

All present enzymatic activity of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.:
5.1.3.1;

Protein crystallography data

The structure of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii., PDB code: 4nu7 was solved by G.Minasov, J.Ruan, H.Ngo, L.Shuvalova, I.Dubrovska, K.Flores, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.88 / 2.05
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 138.510, 138.510, 349.329, 90.00, 90.00, 120.00
R / Rfree (%) 14.9 / 18.7

Other elements in 4nu7:

The structure of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. (pdb code 4nu7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii., PDB code: 4nu7:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4nu7

Go back to Zinc Binding Sites List in 4nu7
Zinc binding site 1 out of 4 in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn303

b:35.4
occ:0.60
 OD1 A:ASP39 2.0 36.0 1.0
NE2 A:HIS37 2.0 27.4 1.0
ND1 A:HIS71 2.2 28.4 1.0
OD2 A:ASP182 2.3 40.3 1.0
O A:HOH434 2.3 49.5 1.0
CD2 A:HIS37 3.0 25.9 1.0
CE1 A:HIS37 3.1 25.6 1.0
CE1 A:HIS71 3.1 28.4 1.0
CG A:ASP39 3.1 34.9 1.0
CG A:HIS71 3.2 26.5 1.0
CG A:ASP182 3.4 39.1 1.0
OD2 A:ASP39 3.5 40.7 1.0
CB A:HIS71 3.6 24.9 1.0
OD1 A:ASP182 3.9 47.3 1.0
ND1 A:HIS37 4.1 26.6 1.0
CE A:MET73 4.1 36.5 1.0
CG A:HIS37 4.1 26.9 1.0
NE2 A:HIS71 4.2 27.3 1.0
CD2 A:HIS71 4.3 25.3 1.0
CB A:ASP39 4.4 31.4 1.0
CB A:ASP182 4.5 33.7 1.0
O A:HOH483 4.7 44.1 1.0
CD2 A:LEU146 4.7 26.4 1.0
CA A:ASP39 4.8 27.1 1.0
CG1 A:VAL202 4.9 30.9 1.0

Zinc binding site 2 out of 4 in 4nu7

Go back to Zinc Binding Sites List in 4nu7
Zinc binding site 2 out of 4 in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn303

b:38.7
occ:0.60
 OD1 B:ASP39 1.9 40.1 1.0
NE2 B:HIS37 2.1 26.2 1.0
OD2 B:ASP182 2.1 47.9 1.0
ND1 B:HIS71 2.3 29.8 1.0
CG B:ASP39 2.9 33.7 1.0
CE1 B:HIS37 3.0 25.5 1.0
CD2 B:HIS37 3.1 24.6 1.0
CE1 B:HIS71 3.2 29.4 1.0
CG B:HIS71 3.3 28.1 1.0
CG B:ASP182 3.3 40.7 1.0
OD2 B:ASP39 3.4 39.8 1.0
CB B:HIS71 3.6 26.4 1.0
OD1 B:ASP182 3.9 39.9 1.0
ND1 B:HIS37 4.1 25.4 1.0
CE B:MET73 4.2 44.3 1.0
CG B:HIS37 4.2 25.4 1.0
CB B:ASP39 4.2 32.8 1.0
NE2 B:HIS71 4.3 29.6 1.0
CD2 B:HIS71 4.4 29.2 1.0
CB B:ASP182 4.4 33.7 1.0
CD2 B:LEU146 4.5 29.5 1.0
CA B:ASP39 4.6 27.3 1.0
SD B:MET73 5.0 37.5 1.0

Zinc binding site 3 out of 4 in 4nu7

Go back to Zinc Binding Sites List in 4nu7
Zinc binding site 3 out of 4 in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn302

b:36.3
occ:0.60
 OD1 C:ASP39 2.0 39.4 1.0
NE2 C:HIS37 2.1 30.0 1.0
ND1 C:HIS71 2.2 29.2 1.0
OD2 C:ASP182 2.3 48.5 1.0
O C:HOH513 2.4 54.0 1.0
CG C:ASP39 3.0 34.0 1.0
CD2 C:HIS37 3.0 26.9 1.0
CE1 C:HIS37 3.1 29.3 1.0
CE1 C:HIS71 3.1 28.1 1.0
CG C:HIS71 3.3 29.2 1.0
CG C:ASP182 3.4 38.7 1.0
OD2 C:ASP39 3.4 43.9 1.0
CB C:HIS71 3.6 29.4 1.0
OD1 C:ASP182 4.0 41.0 1.0
CE C:MET73 4.2 39.2 1.0
ND1 C:HIS37 4.2 29.1 1.0
CG C:HIS37 4.2 27.6 1.0
NE2 C:HIS71 4.3 29.6 1.0
CB C:ASP39 4.3 30.3 1.0
CD2 C:HIS71 4.4 30.3 1.0
CB C:ASP182 4.4 34.4 1.0
CD1 C:LEU146 4.5 30.9 0.6
CD2 C:LEU146 4.6 24.5 0.4
CA C:ASP39 4.8 27.2 1.0
O C:HOH465 4.9 48.5 1.0
SD C:MET73 5.0 36.4 1.0

Zinc binding site 4 out of 4 in 4nu7

Go back to Zinc Binding Sites List in 4nu7
Zinc binding site 4 out of 4 in the 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn301

b:37.5
occ:0.60
 OD1 D:ASP39 2.0 36.5 1.0
NE2 D:HIS37 2.0 26.4 1.0
ND1 D:HIS71 2.3 26.1 1.0
OD2 D:ASP182 2.3 41.1 1.0
O D:HOH527 2.5 45.4 0.5
CE1 D:HIS37 3.0 25.6 1.0
CD2 D:HIS37 3.0 25.1 1.0
CG D:ASP39 3.0 33.9 1.0
CE1 D:HIS71 3.2 27.5 1.0
CG D:HIS71 3.3 25.4 1.0
CG D:ASP182 3.4 41.0 1.0
OD2 D:ASP39 3.5 41.5 1.0
CB D:HIS71 3.6 23.8 1.0
OD1 D:ASP182 4.1 44.5 1.0
ND1 D:HIS37 4.1 25.1 1.0
CG D:HIS37 4.2 24.5 1.0
CE D:MET73 4.2 40.7 1.0
NE2 D:HIS71 4.3 27.3 1.0
CB D:ASP39 4.3 31.2 1.0
CD2 D:HIS71 4.4 26.2 1.0
CB D:ASP182 4.5 35.2 1.0
CD2 D:LEU146 4.5 25.9 1.0
CA D:ASP39 4.7 27.0 1.0

Reference:

G.Minasov, J.Ruan, H.Ngo, L.Shuvalova, I.Dubrovska, K.Flores, D.Shanmugam, D.Roos, W.F.Anderson, Center For Structural Genomics Of Infectious Diseases(Csgid). 2.05 Angstrom Crystal Structure of Ribulose-Phosphate 3-Epimerase From Toxoplasma Gondii. To Be Published.
Page generated: Wed Dec 16 05:37:43 2020

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