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Zinc in PDB 3d0g: Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2

Enzymatic activity of Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2

All present enzymatic activity of Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2:
3.4.17.23;

Protein crystallography data

The structure of Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2, PDB code: 3d0g was solved by F.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.14 / 2.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 80.008, 119.762, 108.801, 90.00, 96.22, 90.00
R / Rfree (%) 21.4 / 27.9

Other elements in 3d0g:

The structure of Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2 also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2 (pdb code 3d0g). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2, PDB code: 3d0g:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3d0g

Go back to Zinc Binding Sites List in 3d0g
Zinc binding site 1 out of 2 in the Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2


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 Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn901

b:85.5
occ:1.00
 OE1 A:GLU402 2.0 62.2 1.0
NE2 A:HIS374 2.2 54.4 1.0
NE2 A:HIS378 2.3 50.8 1.0
CD2 A:HIS374 2.8 54.3 1.0
CD A:GLU402 2.9 61.1 1.0
CD2 A:HIS378 3.1 50.2 1.0
OE2 A:GLU402 3.2 63.4 1.0
CE1 A:HIS374 3.2 54.2 1.0
OE1 A:GLU375 3.3 58.2 1.0
CE1 A:HIS378 3.3 50.9 1.0
CG A:HIS374 4.0 53.4 1.0
ND1 A:HIS374 4.2 53.5 1.0
CG A:GLU402 4.3 57.3 1.0
CD A:GLU375 4.3 57.9 1.0
CG A:HIS378 4.3 49.4 1.0
ND1 A:HIS378 4.3 50.1 1.0
OE2 A:GLU375 4.6 58.6 1.0
CA A:GLU402 4.8 54.2 1.0

Zinc binding site 2 out of 2 in 3d0g

Go back to Zinc Binding Sites List in 3d0g
Zinc binding site 2 out of 2 in the Crystal Structure of Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2


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 Spike Protein Receptor-Binding Domain From the 2002-2003 Sars Coronavirus Human Strain Complexed with Human-Civet Chimeric Receptor ACE2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn901

b:81.2
occ:1.00
 OE1 B:GLU402 2.0 50.7 1.0
NE2 B:HIS378 2.2 48.2 1.0
NE2 B:HIS374 2.4 49.0 1.0
CD B:GLU402 2.9 51.6 1.0
CD2 B:HIS378 3.0 47.8 1.0
CD2 B:HIS374 3.1 48.1 1.0
OE2 B:GLU402 3.1 53.5 1.0
CE1 B:HIS378 3.3 47.9 1.0
OE1 B:GLU375 3.5 55.1 1.0
CE1 B:HIS374 3.6 48.2 1.0
O B:HOH905 3.9 61.3 1.0
CG B:HIS378 4.2 48.6 1.0
CG B:GLU402 4.3 49.7 1.0
CG B:HIS374 4.3 47.8 1.0
ND1 B:HIS378 4.3 49.4 1.0
CD B:GLU375 4.5 54.1 1.0
ND1 B:HIS374 4.5 47.7 1.0
OE2 B:GLU375 4.9 56.4 1.0
CA B:GLU402 4.9 49.4 1.0

Reference:

F.Li, F.Li. N/A N/A.
ISSN: ISSN 0022-538X
PubMed: 18448527
DOI: 10.1128/JVI.00442-08
Page generated: Wed Dec 16 04:11:51 2020

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