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Zinc in PDB 4mz7: Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase

Protein crystallography data

The structure of Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase, PDB code: 4mz7 was solved by C.Zhu, W.Gao, K.Zhao, X.Qin, Y.Zhang, X.Peng, L.Zhang, Y.Dong, W.Zhang, P.Li, W.Wei, Y.Gong, X.F.Yu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 147.404, 103.608, 92.134, 90.00, 121.98, 90.00
R / Rfree (%) 19.4 / 22.6

Other elements in 4mz7:

The structure of Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase (pdb code 4mz7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase, PDB code: 4mz7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4mz7

Go back to Zinc Binding Sites List in 4mz7
Zinc binding site 1 out of 2 in the Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:14.6
occ:1.00
NE2 A:HIS167 2.1 8.3 1.0
NE2 A:HIS206 2.1 12.6 1.0
OD1 A:ASP311 2.2 14.5 1.0
OD2 A:ASP207 2.4 14.2 1.0
CG A:ASP311 3.0 15.6 1.0
CD2 A:HIS206 3.0 12.6 1.0
CD2 A:HIS167 3.0 8.3 1.0
OD2 A:ASP311 3.1 19.7 1.0
CE1 A:HIS167 3.1 8.3 1.0
CG A:ASP207 3.2 14.0 1.0
CE1 A:HIS206 3.2 12.4 1.0
OD1 A:ASP207 3.5 13.5 1.0
NH1 A:ARG164 3.9 8.9 1.0
CG A:HIS167 4.2 7.5 1.0
CG A:HIS206 4.2 11.9 1.0
ND1 A:HIS167 4.2 7.6 1.0
ND1 A:HIS206 4.3 12.7 1.0
CB A:ASP311 4.4 12.5 1.0
CB A:ASP207 4.4 12.5 1.0
CG2 A:VAL171 4.5 7.8 1.0
CA A:ASP311 4.9 11.5 1.0
NE2 A:GLN149 4.9 6.8 1.0

Zinc binding site 2 out of 2 in 4mz7

Go back to Zinc Binding Sites List in 4mz7
Zinc binding site 2 out of 2 in the Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn803

b:11.0
occ:1.00
NE2 B:HIS167 2.1 5.9 1.0
NE2 B:HIS206 2.1 8.3 1.0
OD1 B:ASP311 2.1 9.9 1.0
OD2 B:ASP207 2.5 9.8 1.0
CG B:ASP311 3.0 11.3 1.0
CD2 B:HIS206 3.0 9.9 1.0
CE1 B:HIS167 3.1 5.7 1.0
CD2 B:HIS167 3.1 5.8 1.0
CE1 B:HIS206 3.1 9.2 1.0
OD2 B:ASP311 3.2 15.8 1.0
CG B:ASP207 3.2 9.7 1.0
OD1 B:ASP207 3.4 8.8 1.0
NH1 B:ARG164 3.9 5.7 1.0
ND1 B:HIS167 4.2 5.4 1.0
CG B:HIS206 4.2 9.5 1.0
CG B:HIS167 4.2 5.5 1.0
ND1 B:HIS206 4.2 9.1 1.0
CB B:ASP311 4.4 9.1 1.0
CG2 B:VAL171 4.4 6.1 1.0
CB B:ASP207 4.4 9.3 1.0
CA B:ASP311 4.9 7.5 1.0
NE2 B:GLN149 4.9 4.6 1.0

Reference:

C.Zhu, W.Gao, K.Zhao, X.Qin, Y.Zhang, X.Peng, L.Zhang, Y.Dong, W.Zhang, P.Li, W.Wei, Y.Gong, X.F.Yu. Structural Insight Into Dgtp-Dependent Activation of Tetrameric SAMHD1 Deoxynucleoside Triphosphate Triphosphohydrolase Nat Commun V. 4 2722 2013.
ISSN: ESSN 2041-1723
PubMed: 24217394
DOI: 10.1038/NCOMMS3722
Page generated: Wed Dec 16 05:36:14 2020

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