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Zinc in PDB 4gk8: Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate

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

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

Protein crystallography data

The structure of Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate, PDB code: 4gk8 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) 43.31 / 1.93
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 85.860, 86.622, 45.093, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 19.6

Other elements in 4gk8:

The structure of Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate also contains other interesting chemical elements:

Arsenic (As) 1 atom
Chlorine (Cl) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate (pdb code 4gk8). 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 Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate, PDB code: 4gk8:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4gk8

Go back to Zinc Binding Sites List in 4gk8
Zinc binding site 1 out of 4 in the Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate


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

b:15.9
occ:0.88
 O2 A:GK8305 1.9 21.9 0.8
OE2 A:GLU81 2.0 17.1 1.0
O A:HOH575 2.1 23.9 1.0
NE2 A:HIS109 2.1 19.3 1.0
NE2 A:HIS154 2.1 17.5 1.0
CE1 A:HIS109 3.0 18.4 1.0
CD A:GLU81 3.0 19.0 1.0
CD2 A:HIS154 3.1 15.0 1.0
CD2 A:HIS109 3.1 17.7 1.0
CE1 A:HIS154 3.2 19.0 1.0
AS A:GK8305 3.2 24.1 0.8
OE1 A:GLU81 3.3 16.3 1.0
ZN A:ZN303 3.7 17.4 0.8
O3 A:GK8305 3.7 21.4 0.8
OG A:SER107 3.9 19.9 1.0
CE1 A:TYR157 4.0 20.6 1.0
ND1 A:HIS109 4.1 17.2 1.0
O1 A:GK8305 4.2 21.2 0.8
CB A:SER107 4.2 15.2 1.0
CG A:HIS109 4.2 17.4 1.0
CG A:HIS154 4.2 15.4 1.0
ND1 A:HIS154 4.2 16.1 1.0
CG A:GLU81 4.3 18.2 1.0
CE1 A:HIS42 4.3 16.7 1.0
CD1 A:TYR157 4.3 18.9 1.0
N A:GK8305 4.4 21.1 0.8
CE1 A:HIS9 4.5 16.0 1.0
OD2 A:ASP228 4.5 17.9 1.0
NE2 A:HIS9 4.6 16.5 1.0
O4 A:GK8305 4.6 19.2 0.8
CZ A:TYR157 4.8 22.3 1.0

Zinc binding site 2 out of 4 in 4gk8

Go back to Zinc Binding Sites List in 4gk8
Zinc binding site 2 out of 4 in the Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate


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

b:19.9
occ:1.00
 NE2 A:HIS42 2.1 16.8 1.0
OD2 A:ASP17 2.1 16.9 1.0
NE2 A:HIS230 2.1 18.5 1.0
O4 A:GK8305 2.2 19.2 0.8
O3 A:GK8305 2.7 21.4 0.8
CG A:ASP17 2.8 16.6 1.0
OD1 A:ASP17 2.9 16.2 1.0
AS A:GK8305 3.1 24.1 0.8
CE1 A:HIS42 3.1 16.7 1.0
CD2 A:HIS42 3.1 14.5 1.0
CE1 A:HIS230 3.1 21.7 1.0
CD2 A:HIS230 3.1 16.8 1.0
C A:GK8305 3.3 28.7 0.8
CA A:GK8305 3.8 24.8 0.8
NE2 A:HIS11 4.1 15.7 1.0
ND1 A:HIS42 4.2 16.4 1.0
ND1 A:HIS230 4.2 15.2 1.0
CG A:HIS42 4.2 16.0 1.0
CG A:HIS230 4.2 17.6 1.0
O1 A:GK8305 4.2 21.2 0.8
CE1 A:HIS11 4.2 18.3 1.0
O2 A:GK8305 4.2 21.9 0.8
CD2 A:HIS11 4.3 15.0 1.0
O A:HOH557 4.3 39.2 1.0
CB A:ASP17 4.3 17.6 1.0
ZN A:ZN303 4.4 17.4 0.8
ND1 A:HIS11 4.4 16.1 1.0
N A:GK8305 4.5 21.1 0.8
CG A:HIS11 4.5 15.9 1.0
CD2 A:GK8305 4.8 27.6 0.8
CE1 A:PHE52 4.9 18.7 1.0

Zinc binding site 3 out of 4 in 4gk8

Go back to Zinc Binding Sites List in 4gk8
Zinc binding site 3 out of 4 in the Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate


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

b:17.4
occ:0.84
 O3 A:GK8305 1.8 21.4 0.8
O A:HOH575 2.1 23.9 1.0
NE2 A:HIS9 2.1 16.5 1.0
NE2 A:HIS11 2.2 15.7 1.0
OE1 A:GLU81 2.2 16.3 1.0
OD1 A:ASP228 2.3 19.9 1.0
CE1 A:HIS11 3.0 18.3 1.0
CE1 A:HIS9 3.1 16.0 1.0
CD2 A:HIS9 3.1 16.9 1.0
CD A:GLU81 3.1 19.0 1.0
CG A:ASP228 3.2 20.7 1.0
CD2 A:HIS11 3.2 15.0 1.0
AS A:GK8305 3.2 24.1 0.8
OD2 A:ASP228 3.4 17.9 1.0
OE2 A:GLU81 3.5 17.1 1.0
ZN A:ZN301 3.7 15.9 0.9
O2 A:GK8305 3.9 21.9 0.8
CE1 A:HIS42 3.9 16.7 1.0
O1 A:GK8305 4.1 21.2 0.8
ND1 A:HIS9 4.2 17.1 1.0
ND1 A:HIS11 4.2 16.1 1.0
CE1 A:HIS230 4.2 21.7 1.0
CG A:HIS9 4.2 14.4 1.0
NE2 A:HIS42 4.2 16.8 1.0
CG A:HIS11 4.3 15.9 1.0
ZN A:ZN302 4.4 19.9 1.0
CG A:GLU81 4.4 18.2 1.0
CB A:ASP228 4.5 18.7 1.0
NE2 A:HIS230 4.6 18.5 1.0
O4 A:GK8305 4.6 19.2 0.8
CB A:GLU81 4.7 17.5 1.0
ND1 A:HIS42 4.8 16.4 1.0
CA A:ASP228 4.8 16.1 1.0

Zinc binding site 4 out of 4 in 4gk8

Go back to Zinc Binding Sites List in 4gk8
Zinc binding site 4 out of 4 in the Crystal Structure of Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate


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 Histidinol Phosphate Phosphatase (Hisk) From Lactococcus Lactis Subsp. Lactis IL1403 Complexed with Zn and L- Histidinol Arsenate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn304

b:21.4
occ:1.00
 N3 A:IMD309 2.0 21.6 1.0
NE2 A:HIS32 2.0 20.7 1.0
NE2 A:HIS240 2.0 22.4 1.0
CL A:CL306 2.2 24.2 1.0
C2 A:IMD309 2.9 23.7 1.0
CD2 A:HIS240 2.9 21.0 1.0
CD2 A:HIS32 3.0 16.2 1.0
CE1 A:HIS32 3.0 18.6 1.0
CE1 A:HIS240 3.1 19.2 1.0
C4 A:IMD309 3.1 21.8 1.0
N1 A:IMD309 4.1 28.4 1.0
CG A:HIS32 4.1 18.0 1.0
ND1 A:HIS32 4.1 17.4 1.0
CG A:HIS240 4.1 20.0 1.0
ND1 A:HIS240 4.2 19.4 1.0
C5 A:IMD309 4.2 23.2 1.0
CE3 A:TRP236 4.3 20.7 1.0
CZ3 A:TRP236 4.8 19.8 1.0
CD2 A:TRP236 4.9 17.9 1.0

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: Wed Dec 16 05:19:54 2020

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