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Zinc in PDB 4gc3: Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate

Enzymatic activity of Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate

All present enzymatic activity of Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate:
3.1.3.15;

Protein crystallography data

The structure of Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate, PDB code: 4gc3 was solved by A.A.Fedorov, E.V.Fedorov, S.Ghodge, F.M.Raushel, S.C.Almo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.03 / 1.32
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 51.480, 76.495, 78.057, 90.00, 90.00, 90.00
R / Rfree (%) 15.2 / 16.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate (pdb code 4gc3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate, PDB code: 4gc3:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 4gc3

Go back to Zinc Binding Sites List in 4gc3
Zinc binding site 1 out of 3 in the Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate


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 L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:8.7
occ:0.83
 O3 A:SO4304 2.0 9.2 0.7
OD2 A:ASP17 2.0 11.5 1.0
NE2 A:HIS230 2.0 9.6 1.0
NE2 A:HIS42 2.0 8.6 1.0
CG A:ASP17 2.7 9.2 1.0
OD1 A:ASP17 2.8 9.8 1.0
CE1 A:HIS230 3.0 10.0 1.0
CE1 A:HIS42 3.0 9.2 1.0
CD2 A:HIS42 3.0 8.9 1.0
CD2 A:HIS230 3.1 9.3 1.0
S A:SO4304 3.2 14.6 0.7
O2 A:SO4304 3.5 17.8 0.7
O4 A:SO4304 3.9 12.0 0.7
ND1 A:HIS230 4.1 10.2 1.0
ND1 A:HIS42 4.1 9.4 1.0
CB A:ASP17 4.2 11.0 1.0
CG A:HIS42 4.2 8.5 1.0
CG A:HIS230 4.2 9.7 1.0
O1 A:SO4304 4.3 19.3 0.7
O A:HOH629 4.3 34.1 1.0
NE2 A:HIS11 4.3 9.6 1.0
O A:HOH592 4.3 29.3 1.0
CD2 A:HIS11 4.3 8.4 1.0
CE1 A:HIS11 4.5 8.3 1.0
CG A:HIS11 4.5 8.7 1.0
O A:HOH785 4.5 11.4 1.0
ND1 A:HIS11 4.5 8.5 1.0
O A:HOH655 4.6 34.4 1.0
CE1 A:PHE52 4.8 12.9 1.0
ZN A:ZN302 4.8 7.7 0.8
O A:ASP17 5.0 11.0 1.0

Zinc binding site 2 out of 3 in 4gc3

Go back to Zinc Binding Sites List in 4gc3
Zinc binding site 2 out of 3 in the Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate


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 L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:7.7
occ:0.80
 O A:HOH785 1.9 11.4 1.0
NE2 A:HIS9 2.1 9.3 1.0
NE2 A:HIS11 2.1 9.6 1.0
OD1 A:ASP228 2.2 10.0 1.0
OE1 A:GLU81 2.3 10.1 1.0
CG A:ASP228 3.0 10.5 1.0
CE1 A:HIS11 3.0 8.3 1.0
CD2 A:HIS9 3.1 8.7 1.0
CE1 A:HIS9 3.1 8.3 1.0
CD A:GLU81 3.1 9.2 1.0
CD2 A:HIS11 3.1 8.4 1.0
OD2 A:ASP228 3.2 11.7 1.0
ZN A:ZN303 3.4 7.9 0.8
OE2 A:GLU81 3.4 10.4 1.0
CE1 A:HIS42 3.7 9.2 1.0
O4 A:SO4304 4.0 12.0 0.7
ND1 A:HIS9 4.2 9.4 1.0
ND1 A:HIS11 4.2 8.5 1.0
CG A:HIS9 4.2 8.2 1.0
CG A:HIS11 4.2 8.7 1.0
NE2 A:HIS42 4.3 8.6 1.0
CB A:ASP228 4.4 11.2 1.0
CG A:GLU81 4.4 9.9 1.0
ND1 A:HIS42 4.4 9.4 1.0
CE1 A:HIS230 4.5 10.0 1.0
O3 A:SO4304 4.5 9.2 0.7
CA A:ASP228 4.7 9.5 1.0
NE2 A:HIS154 4.7 9.7 1.0
CB A:GLU81 4.8 9.4 1.0
ZN A:ZN301 4.8 8.7 0.8
CD2 A:HIS154 4.8 9.3 1.0
S A:SO4304 4.9 14.6 0.7
NE2 A:HIS230 5.0 9.6 1.0

Zinc binding site 3 out of 3 in 4gc3

Go back to Zinc Binding Sites List in 4gc3
Zinc binding site 3 out of 3 in the Crystal Structure of L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate


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 L-Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and Sulfate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn303

b:7.9
occ:0.83
 O A:HOH785 1.9 11.4 1.0
OE2 A:GLU81 2.0 10.4 1.0
NE2 A:HIS109 2.0 8.7 1.0
NE2 A:HIS154 2.0 9.7 1.0
CE1 A:HIS109 2.9 9.3 1.0
CD A:GLU81 2.9 9.2 1.0
CE1 A:HIS154 3.0 9.5 1.0
CD2 A:HIS154 3.0 9.3 1.0
CD2 A:HIS109 3.1 9.7 1.0
OE1 A:GLU81 3.2 10.1 1.0
ZN A:ZN302 3.4 7.7 0.8
OG A:SER107 3.9 10.9 1.0
OD2 A:ASP228 4.1 11.7 1.0
ND1 A:HIS109 4.1 9.4 1.0
CE1 A:TYR157 4.1 11.4 1.0
CB A:SER107 4.1 10.3 1.0
ND1 A:HIS154 4.1 9.8 1.0
O4 A:SO4304 4.2 12.0 0.7
CE1 A:HIS9 4.2 8.3 1.0
CG A:HIS154 4.2 9.3 1.0
CG A:HIS109 4.2 8.8 1.0
CG A:GLU81 4.3 9.9 1.0
NE2 A:HIS9 4.3 9.3 1.0
CE1 A:HIS42 4.3 9.2 1.0
CD1 A:TYR157 4.5 11.5 1.0
OD1 A:ASP228 4.7 10.0 1.0
O A:HOH629 4.8 34.1 1.0
CG A:ASP228 4.8 10.5 1.0
CZ A:TYR157 4.9 11.7 1.0
O3 A:SO4304 4.9 9.2 0.7
ND1 A:HIS42 4.9 9.4 1.0
S A:SO4304 4.9 14.6 0.7

Reference:

S.V.Ghodge, A.A.Fedorov, E.V.Fedorov, B.Hillerich, R.Seidel, S.C.Almo, F.M.Raushel. Structural and Mechanistic Characterization of L-Histidinol Phosphate Phosphatase From the Polymerase and Histidinol Phosphatase Family of Proteins. Biochemistry V. 52 1101 2013.
ISSN: ISSN 0006-2960
PubMed: 23327428
DOI: 10.1021/BI301496P
Page generated: Sat Oct 26 23:13:50 2024

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