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Zinc in PDB 2b3z: Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis

Enzymatic activity of Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis

All present enzymatic activity of Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis:
1.1.1.193; 3.5.4.26;

Protein crystallography data

The structure of Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis, PDB code: 2b3z was solved by S.J.Chen, Y.C.Chang, S.H.Liaw, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.41
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 87.322, 108.450, 186.977, 90.00, 90.00, 90.00
R / Rfree (%) 22.6 / 27.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis (pdb code 2b3z). 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 Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis, PDB code: 2b3z:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2b3z

Go back to Zinc Binding Sites List in 2b3z
Zinc binding site 1 out of 4 in the Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis


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 Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1360

b:31.4
occ:1.00
O A:HOH1362 2.0 25.2 1.0
ND1 A:HIS49 2.0 37.5 1.0
SG A:CYS83 2.3 31.8 1.0
SG A:CYS74 2.4 33.3 1.0
CE1 A:HIS49 3.0 37.7 1.0
CG A:HIS49 3.1 35.7 1.0
CB A:CYS83 3.1 32.0 1.0
CB A:HIS49 3.4 34.7 1.0
CB A:CYS74 3.5 27.4 1.0
OE2 A:GLU51 3.9 33.5 1.0
N A:CYS83 3.9 33.5 1.0
N A:CYS74 4.0 30.1 1.0
NE2 A:HIS49 4.1 37.5 1.0
CA A:CYS83 4.1 33.7 1.0
OE1 A:GLU51 4.2 31.0 1.0
CD2 A:HIS49 4.2 37.1 1.0
CD A:GLU51 4.2 30.7 1.0
CA A:CYS74 4.3 29.9 1.0
O A:CYS74 4.9 32.1 1.0
CA A:HIS49 5.0 32.7 1.0
C A:PRO73 5.0 29.2 1.0

Zinc binding site 2 out of 4 in 2b3z

Go back to Zinc Binding Sites List in 2b3z
Zinc binding site 2 out of 4 in the Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis


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 Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1360

b:44.4
occ:1.00
SG B:CYS83 2.1 43.7 1.0
ND1 B:HIS49 2.2 37.8 1.0
O B:HOH1363 2.3 46.8 1.0
SG B:CYS74 2.5 51.3 1.0
CE1 B:HIS49 3.0 39.8 1.0
CB B:CYS83 3.2 49.9 1.0
CG B:HIS49 3.3 36.5 1.0
CB B:CYS74 3.3 51.0 1.0
OE2 B:GLU51 3.5 47.4 1.0
N B:CYS74 3.6 50.0 1.0
CB B:HIS49 3.7 35.7 1.0
CA B:CYS74 4.1 52.4 1.0
N B:CYS83 4.1 52.4 1.0
CD B:GLU51 4.1 43.5 1.0
NE2 B:HIS49 4.2 41.0 1.0
CA B:CYS83 4.3 51.4 1.0
OE1 B:GLU51 4.3 43.6 1.0
CD2 B:HIS49 4.3 37.7 1.0
C B:PRO73 4.8 48.1 1.0

Zinc binding site 3 out of 4 in 2b3z

Go back to Zinc Binding Sites List in 2b3z
Zinc binding site 3 out of 4 in the Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis


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 Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1360

b:51.6
occ:1.00
O C:HOH1434 2.0 46.1 1.0
SG C:CYS83 2.3 61.1 1.0
ND1 C:HIS49 2.4 46.4 1.0
SG C:CYS74 2.6 55.8 1.0
CE1 C:HIS49 3.1 44.7 1.0
CB C:CYS83 3.2 65.4 1.0
CG C:HIS49 3.2 45.7 1.0
CB C:CYS74 3.3 55.9 1.0
OE1 C:GLU51 3.5 39.9 1.0
CB C:HIS49 3.6 43.0 1.0
N C:CYS74 3.7 54.5 1.0
OE2 C:GLU51 3.9 42.1 1.0
CD C:GLU51 3.9 43.0 1.0
CA C:CYS74 4.1 57.1 1.0
NE2 C:HIS49 4.1 44.7 1.0
CD2 C:HIS49 4.2 44.8 1.0
N C:CYS83 4.3 68.7 1.0
CA C:CYS83 4.3 66.0 1.0
C C:PRO73 4.8 53.8 1.0
C C:CYS74 5.0 59.6 1.0
CA C:PRO73 5.0 51.8 1.0

Zinc binding site 4 out of 4 in 2b3z

Go back to Zinc Binding Sites List in 2b3z
Zinc binding site 4 out of 4 in the Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis


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 Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1360

b:41.4
occ:1.00
ND1 D:HIS49 2.0 29.9 1.0
SG D:CYS74 2.3 35.5 1.0
SG D:CYS83 2.3 30.2 1.0
CE1 D:HIS49 2.9 31.7 1.0
CG D:HIS49 3.1 33.0 1.0
CB D:CYS83 3.2 31.0 1.0
CB D:CYS74 3.2 33.2 1.0
CB D:HIS49 3.5 33.2 1.0
N D:CYS74 3.6 34.4 1.0
N D:CYS83 3.9 33.0 1.0
NE2 D:HIS49 4.0 33.2 1.0
CA D:CYS74 4.0 35.0 1.0
OE2 D:GLU51 4.1 26.2 1.0
CD2 D:HIS49 4.2 30.5 1.0
CA D:CYS83 4.2 31.1 1.0
OE1 D:GLU51 4.3 23.8 1.0
CD D:GLU51 4.4 24.7 1.0
C D:PRO73 4.7 33.2 1.0
O D:CYS74 4.7 37.0 1.0
C D:CYS74 4.8 36.5 1.0
CA D:PRO73 5.0 33.7 1.0

Reference:

S.J.Chen, Y.C.Chang, S.H.Liaw. Crystal Structure of A Bifunctional Deaminase and Reductase Involved in Riboflavin Biosynthesis To Be Published.
Page generated: Wed Dec 16 03:18:03 2020

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