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Zinc in PDB 6lrl: Human Cgas Catalytic Domain Bound with Compound S2

Enzymatic activity of Human Cgas Catalytic Domain Bound with Compound S2

All present enzymatic activity of Human Cgas Catalytic Domain Bound with Compound S2:
2.7.7.86;

Protein crystallography data

The structure of Human Cgas Catalytic Domain Bound with Compound S2, PDB code: 6lrl was solved by W.F.Zhao, M.Y.Xiong, X.J.Yuan, H.B.Sun, Y.C.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.74 / 2.66
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 215.412, 47.985, 87.926, 90.00, 112.09, 90.00
R / Rfree (%) 25.4 / 29

Zinc Binding Sites:

The binding sites of Zinc atom in the Human Cgas Catalytic Domain Bound with Compound S2 (pdb code 6lrl). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human Cgas Catalytic Domain Bound with Compound S2, PDB code: 6lrl:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6lrl

Go back to Zinc Binding Sites List in 6lrl
Zinc binding site 1 out of 2 in the Human Cgas Catalytic Domain Bound with Compound S2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Cgas Catalytic Domain Bound with Compound S2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn601

b:71.0
occ:1.00
NE2 B:HIS390 2.1 65.9 1.0
SG B:CYS396 2.4 54.4 1.0
SG B:CYS397 2.4 64.1 1.0
SG B:CYS404 2.4 50.5 1.0
CB B:CYS397 2.8 62.8 1.0
CD2 B:HIS390 3.0 61.7 1.0
CE1 B:HIS390 3.2 62.5 1.0
N B:CYS397 3.2 59.5 1.0
CB B:CYS404 3.3 48.6 1.0
CA B:CYS397 3.5 60.5 1.0
C B:CYS396 3.5 60.2 1.0
CB B:CYS396 3.7 47.9 1.0
N B:CYS404 3.7 58.4 1.0
O B:CYS396 4.0 68.6 1.0
CA B:CYS404 4.0 46.9 1.0
CA B:CYS396 4.2 49.9 1.0
CG B:HIS390 4.2 59.1 1.0
ND1 B:HIS390 4.3 62.3 1.0
C B:CYS404 4.5 46.6 1.0
O B:CYS404 4.5 56.1 1.0
O B:GLU402 4.5 71.7 1.0
NH1 B:ARG406 4.8 44.4 1.0
C B:LYS403 4.9 59.8 1.0
C B:CYS397 4.9 62.6 1.0

Zinc binding site 2 out of 2 in 6lrl

Go back to Zinc Binding Sites List in 6lrl
Zinc binding site 2 out of 2 in the Human Cgas Catalytic Domain Bound with Compound S2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Cgas Catalytic Domain Bound with Compound S2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:58.0
occ:1.00
CE1 A:HIS390 2.2 85.9 1.0
SG A:CYS397 2.3 50.4 1.0
SG A:CYS404 2.4 52.9 1.0
SG A:CYS396 2.7 60.3 1.0
ND1 A:HIS390 2.7 83.2 1.0
NE2 A:HIS390 3.0 86.4 1.0
CB A:CYS397 3.2 49.2 1.0
CB A:CYS404 3.3 49.1 1.0
CG A:HIS390 3.6 81.7 1.0
N A:CYS397 3.7 49.6 1.0
CD2 A:HIS390 3.7 86.0 1.0
N A:CYS404 3.8 55.4 1.0
C A:CYS396 3.8 55.4 1.0
CB A:CYS396 3.9 54.9 1.0
CA A:CYS397 4.0 48.4 1.0
CA A:CYS404 4.0 50.4 1.0
O A:CYS396 4.1 53.6 1.0
O A:GLU402 4.3 66.9 1.0
C A:CYS404 4.5 52.1 1.0
CA A:CYS396 4.5 54.7 1.0
O A:CYS404 4.5 53.1 1.0
CB A:HIS390 4.8 74.4 1.0
C A:LYS403 4.9 64.2 1.0

Reference:

W.F.Zhao, M.Y.Xiong, X.J.Yuan, M.J.Li, H.B.Sun, Y.C.Xu. In Silico Screening-Based Discovery of Novel Inhibitors of Human Cyclic Gmp-Amp Synthase: A Cross-Validation Study of Molecular Docking and Experimental Testing. J.Chem.Inf.Model. 2020.
ISSN: ESSN 1549-960X
PubMed: 32459092
DOI: 10.1021/ACS.JCIM.0C00171
Page generated: Wed Dec 16 12:16:42 2020

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