Zinc in PDB 3tdp: Crystal Structure of Hsc at pH 4.5

The structure of Crystal Structure of Hsc at pH 4.5, PDB code: 3tdp was solved by B.K.Czyzewski, D.-N.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.44 / 2.99
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	120.515, 162.903, 194.104, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 24

The binding sites of Zinc atom in the Crystal Structure of Hsc at pH 4.5 (pdb code 3tdp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Crystal Structure of Hsc at pH 4.5, PDB code: 3tdp:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Crystal Structure of Hsc at pH 4.5


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 Hsc at pH 4.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn258 b:48.8 occ:1.00 NZ A:LYS3 2.0 43.7 1.0 OD2 A:ASP7 2.5 58.8 1.0 CE A:LYS3 2.5 53.2 1.0 OD1 A:ASP7 2.6 55.0 1.0 CG A:ASP7 2.9 54.5 1.0 CD A:LYS3 4.0 82.0 1.0 CB A:ASP7 4.3 46.5 1.0 OE2 A:GLU255 4.5 61.8 1.0 CG A:LYS3 4.7 89.9 1.0

Zinc binding site 2 out of 5 in the Crystal Structure of Hsc at pH 4.5


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 Hsc at pH 4.5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn259 b:52.5 occ:1.00 NZ B:LYS3 2.3 29.1 1.0 OD2 B:ASP7 2.4 66.1 1.0 OD1 B:ASP7 2.7 70.9 1.0 CE B:LYS3 2.8 54.7 1.0 CG B:ASP7 2.8 67.5 1.0 CD B:LYS3 4.0 88.3 1.0 CB B:ASP7 4.4 61.8 1.0

Zinc binding site 3 out of 5 in the Crystal Structure of Hsc at pH 4.5


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 Hsc at pH 4.5 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn258 b:0.9 occ:1.00 NZ C:LYS3 2.3 19.6 1.0 CE C:LYS3 2.6 41.6 1.0 OD1 C:ASP7 3.4 76.2 1.0 CD C:LYS3 3.5 67.3 1.0 OD2 C:ASP7 3.9 92.7 1.0 CG C:ASP7 4.0 82.3 1.0 OE1 C:GLU255 4.5 0.0 1.0 CD C:GLU255 4.9 98.1 1.0 CG C:LYS3 4.9 91.2 1.0

Zinc binding site 4 out of 5 in the Crystal Structure of Hsc at pH 4.5


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 Hsc at pH 4.5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn258 b:63.1 occ:1.00 OD2 D:ASP7 1.9 83.8 1.0 NZ D:LYS3 2.1 73.9 1.0 CE D:LYS3 2.4 70.1 1.0 CG D:ASP7 2.6 80.6 1.0 OD1 D:ASP7 2.8 84.1 1.0 CD D:LYS3 3.7 91.1 1.0 CB D:ASP7 4.0 70.6 1.0 OE2 D:GLU255 4.6 70.2 1.0 CG D:LYS3 4.7 99.0 1.0 CD D:GLU255 4.8 70.7 1.0 OE1 D:GLU255 4.9 77.4 1.0 CA D:ASP7 4.9 65.2 1.0

Zinc binding site 5 out of 5 in the Crystal Structure of Hsc at pH 4.5


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Hsc at pH 4.5 within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn258 b:61.9 occ:1.00 NZ E:LYS3 2.1 25.5 1.0 OD2 E:ASP7 2.3 67.3 1.0 OD1 E:ASP7 2.5 62.0 1.0 CG E:ASP7 2.8 63.5 1.0 CE E:LYS3 2.9 82.7 1.0 OE1 E:GLU255 3.9 0.9 1.0 CB E:ASP7 4.3 53.8 1.0 CD E:LYS3 4.3 87.1 1.0

B.K.Czyzewski, D.N.Wang. Identification and Characterization of A Bacterial Hydrosulphide Ion Channel. Nature V. 483 494 2012.
ISSN: ISSN 0028-0836
PubMed: 22407320
DOI: 10.1038/NATURE10881