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Zinc in PDB 1y13: Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps)

Enzymatic activity of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps)

All present enzymatic activity of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps):
4.2.3.12;

Protein crystallography data

The structure of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps), PDB code: 1y13 was solved by J.Bosch, W.G.J.Hol, Structural Genomics Of Pathogenic Protozoaconsortium (Sgpp), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.20
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 103.319, 103.319, 131.111, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 23.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps) (pdb code 1y13). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps), PDB code: 1y13:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1y13

Go back to Zinc Binding Sites List in 1y13
Zinc binding site 1 out of 3 in the Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn174

b:62.7
occ:1.00
O10 A:BIO175 1.9 61.0 1.0
NE2 A:HIS41 2.1 57.0 1.0
NE2 A:HIS43 2.2 55.2 1.0
NE2 A:HIS29 2.3 50.7 1.0
O9 A:BIO175 2.3 57.6 1.0
C10 A:BIO175 3.0 76.8 1.0
CE1 A:HIS41 3.1 55.8 1.0
CE1 A:HIS29 3.1 52.5 1.0
CD2 A:HIS43 3.1 48.8 1.0
CD2 A:HIS41 3.2 54.4 1.0
C9 A:BIO175 3.2 67.9 1.0
CE1 A:HIS43 3.3 49.8 1.0
CD2 A:HIS29 3.4 54.0 1.0
OE1 A:GLU161 3.7 74.5 1.0
OE2 A:GLU38 4.0 63.2 1.0
N5 A:BIO175 4.1 64.7 1.0
C6 A:BIO175 4.1 57.2 1.0
ND1 A:HIS41 4.2 54.0 1.0
CG A:HIS41 4.3 56.0 1.0
C11 A:BIO175 4.3 78.4 1.0
ND1 A:HIS29 4.3 55.0 1.0
CG A:HIS43 4.3 52.1 1.0
CD A:GLU161 4.3 68.4 1.0
OE2 A:GLU161 4.3 67.8 1.0
ND1 A:HIS43 4.4 48.5 1.0
O A:HOH176 4.5 42.6 1.0
CG A:HIS29 4.5 52.2 1.0
CD A:GLU38 4.8 60.5 1.0
CD1 A:ILE31 5.0 66.4 1.0

Zinc binding site 2 out of 3 in 1y13

Go back to Zinc Binding Sites List in 1y13
Zinc binding site 2 out of 3 in the Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn174

b:64.7
occ:1.00
NE2 B:HIS41 2.1 55.3 1.0
NE2 B:HIS43 2.2 50.1 1.0
NE2 B:HIS29 2.3 52.7 1.0
O9 B:BIO175 2.4 61.1 1.0
O10 B:BIO175 2.4 63.4 1.0
C10 B:BIO175 3.0 77.7 1.0
CE1 B:HIS41 3.0 53.8 1.0
CD2 B:HIS43 3.1 50.4 1.0
CE1 B:HIS29 3.1 50.8 1.0
CD2 B:HIS41 3.1 57.8 1.0
C9 B:BIO175 3.2 66.4 1.0
CE1 B:HIS43 3.3 52.8 1.0
CD2 B:HIS29 3.4 51.1 1.0
OE1 B:GLU161 3.7 74.6 1.0
C6 B:BIO175 4.1 57.6 1.0
OE2 B:GLU38 4.1 62.9 1.0
ND1 B:HIS41 4.2 55.0 1.0
N5 B:BIO175 4.2 62.1 1.0
CG B:HIS41 4.3 52.1 1.0
CG B:HIS43 4.3 51.2 1.0
ND1 B:HIS29 4.3 53.4 1.0
CD B:GLU161 4.3 70.9 1.0
ND1 B:HIS43 4.4 53.0 1.0
OE2 B:GLU161 4.4 67.1 1.0
CG B:HIS29 4.4 51.1 1.0
C11 B:BIO175 4.5 77.7 1.0
O B:HOH177 4.5 41.6 1.0
CD1 B:ILE31 4.9 64.7 1.0
OH B:TYR45 5.0 55.7 1.0

Zinc binding site 3 out of 3 in 1y13

Go back to Zinc Binding Sites List in 1y13
Zinc binding site 3 out of 3 in the Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn174

b:65.3
occ:1.00
NE2 C:HIS43 2.2 59.7 1.0
NE2 C:HIS29 2.3 46.2 1.0
NE2 C:HIS41 2.4 60.3 1.0
O9 C:BIO175 2.5 64.3 1.0
O10 C:BIO175 2.6 66.7 1.0
C10 C:BIO175 3.0 75.7 1.0
CE1 C:HIS29 3.1 44.7 1.0
CD2 C:HIS43 3.1 51.1 1.0
C9 C:BIO175 3.2 63.4 1.0
CE1 C:HIS43 3.3 53.0 1.0
CD2 C:HIS41 3.4 58.4 1.0
CE1 C:HIS41 3.4 56.0 1.0
CD2 C:HIS29 3.4 50.6 1.0
OE1 C:GLU161 3.6 76.7 1.0
N5 C:BIO175 4.0 62.5 1.0
C6 C:BIO175 4.1 57.6 1.0
O C:HOH189 4.1 67.5 1.0
OE2 C:GLU38 4.2 66.1 1.0
CD C:GLU161 4.3 70.2 1.0
CG C:HIS43 4.3 54.9 1.0
ND1 C:HIS29 4.3 56.3 1.0
ND1 C:HIS43 4.3 57.1 1.0
OE2 C:GLU161 4.4 68.5 1.0
ND1 C:HIS41 4.5 57.0 1.0
CG C:HIS41 4.5 55.5 1.0
CG C:HIS29 4.5 54.5 1.0
C11 C:BIO175 4.5 77.9 1.0
OH C:TYR45 4.9 55.0 1.0
OE1 C:GLU38 4.9 69.8 1.0
CD C:GLU38 4.9 61.8 1.0

Reference:

J.Bosch, W.G.J.Hol, Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp). Structural Analysis of Plasmodium Falciparum 6-Pyruvoyl Tetrahydropterin Synthase (Ptps) To Be Published.
Page generated: Wed Dec 16 03:13:29 2020

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