Zinc in PDB 8jg7: Serine Decarboxylase

The structure of Serine Decarboxylase, PDB code: 8jg7 was solved by H.Wang, W.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.39 / 2.85
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	115.36, 149.45, 139.126, 90, 109.18, 90
R / Rfree (%)	21.4 / 26.2

The binding sites of Zinc atom in the Serine Decarboxylase (pdb code 8jg7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Serine Decarboxylase, PDB code: 8jg7:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Serine Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Serine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:69.2 occ:1.00 ND1 A:HIS481 2.1 83.7 1.0 SG A:CYS478 2.3 75.8 1.0 SG A:CYS466 2.3 63.2 1.0 SG A:CYS476 2.4 63.8 1.0 O A:CYS466 2.8 73.2 1.0 CE1 A:HIS481 3.0 85.5 1.0 CG A:HIS481 3.1 83.1 1.0 CB A:CYS478 3.4 76.0 1.0 CB A:HIS481 3.6 77.3 1.0 CB A:CYS466 3.6 65.3 1.0 CB A:CYS476 3.6 62.1 1.0 C A:CYS466 3.7 65.2 1.0 CA A:CYS466 3.9 70.1 1.0 CB A:ALA468 4.1 74.2 1.0 NE2 A:HIS481 4.2 72.3 1.0 N A:CYS478 4.2 76.1 1.0 CD2 A:HIS481 4.3 81.8 1.0 CA A:CYS478 4.3 79.3 1.0 N A:ALA468 4.5 79.5 1.0 N A:HIS481 4.5 92.2 1.0 CA A:HIS481 4.7 91.7 1.0 O A:CYS478 4.9 104.3 1.0 CB A:ALA480 4.9 88.5 1.0 C A:CYS478 4.9 97.2 1.0 N A:LEU467 4.9 63.1 1.0 CA A:ALA468 4.9 83.1 1.0 CA A:CYS476 4.9 67.3 1.0

Zinc binding site 2 out of 4 in the Serine Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Serine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn502 b:93.4 occ:1.00 ND1 C:HIS481 2.1 107.6 1.0 SG C:CYS476 2.3 80.1 1.0 SG C:CYS478 2.4 104.2 1.0 SG C:CYS466 2.4 87.1 1.0 O C:CYS466 2.6 106.1 1.0 CE1 C:HIS481 3.1 111.5 1.0 CG C:HIS481 3.2 107.6 1.0 CB C:CYS478 3.5 101.0 1.0 CB C:CYS476 3.5 70.7 1.0 C C:CYS466 3.5 87.4 1.0 CB C:HIS481 3.6 105.7 1.0 CB C:CYS466 3.6 85.2 1.0 CA C:CYS466 3.7 85.1 1.0 CB C:ALA468 4.0 78.6 1.0 N C:CYS478 4.2 93.4 1.0 NE2 C:HIS481 4.3 122.0 1.0 CD2 C:HIS481 4.3 117.2 1.0 N C:ALA468 4.3 80.6 1.0 CA C:CYS478 4.4 106.6 1.0 N C:LEU467 4.7 87.8 1.0 N C:HIS481 4.7 98.9 1.0 CA C:ALA468 4.8 76.9 1.0 CA C:CYS476 4.8 67.8 1.0 CA C:HIS481 4.8 97.7 1.0 O C:CYS478 4.8 142.3 1.0 C C:CYS478 4.9 122.1 1.0 C C:CYS476 4.9 73.5 1.0 N C:ILE477 4.9 82.2 1.0

Zinc binding site 3 out of 4 in the Serine Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Serine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn502 b:61.8 occ:1.00 ND1 D:HIS481 2.0 69.8 1.0 SG D:CYS466 2.3 55.7 1.0 SG D:CYS478 2.4 64.4 1.0 SG D:CYS476 2.4 57.6 1.0 O D:CYS466 2.9 77.1 1.0 CE1 D:HIS481 2.9 72.9 1.0 CG D:HIS481 3.0 71.5 1.0 CB D:CYS478 3.5 62.8 1.0 CB D:HIS481 3.5 73.2 1.0 CB D:CYS476 3.5 62.3 1.0 CB D:CYS466 3.7 61.2 1.0 C D:CYS466 3.8 63.8 1.0 CA D:CYS466 4.0 63.3 1.0 CB D:ALA468 4.1 51.8 1.0 NE2 D:HIS481 4.1 59.9 1.0 CD2 D:HIS481 4.2 63.1 1.0 N D:CYS478 4.3 58.0 1.0 CA D:CYS478 4.4 63.9 1.0 N D:HIS481 4.5 77.3 1.0 N D:ALA468 4.5 61.2 1.0 CA D:HIS481 4.6 77.6 1.0 CB D:ALA480 4.7 60.2 1.0 O D:CYS478 4.8 75.0 1.0 CA D:CYS476 4.9 60.7 1.0 C D:CYS478 4.9 80.5 1.0 CA D:ALA468 4.9 57.3 1.0 C D:CYS476 5.0 61.5 1.0 N D:LEU467 5.0 55.0 1.0

Zinc binding site 4 out of 4 in the Serine Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Serine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn502 b:61.9 occ:1.00 ND1 E:HIS481 2.2 68.9 1.0 SG E:CYS476 2.3 62.2 1.0 SG E:CYS478 2.3 88.3 1.0 SG E:CYS466 2.4 67.7 1.0 O E:CYS466 2.5 90.5 1.0 CE1 E:HIS481 3.0 69.2 1.0 CG E:HIS481 3.2 74.0 1.0 C E:CYS466 3.4 79.0 1.0 CB E:CYS478 3.4 82.1 1.0 CB E:CYS476 3.5 58.4 1.0 CB E:CYS466 3.6 73.7 1.0 CA E:CYS466 3.6 74.1 1.0 CB E:HIS481 3.7 82.9 1.0 CB E:ALA468 4.1 69.8 1.0 N E:CYS478 4.2 80.0 1.0 NE2 E:HIS481 4.2 80.8 1.0 CD2 E:HIS481 4.3 77.2 1.0 N E:ALA468 4.3 73.7 1.0 CA E:CYS478 4.3 84.0 1.0 N E:LEU467 4.6 74.3 1.0 CA E:CYS476 4.8 58.2 1.0 CA E:ALA468 4.8 66.5 1.0 N E:HIS481 4.8 82.7 1.0 O E:CYS478 4.8 102.4 1.0 C E:CYS478 4.9 92.5 1.0 CA E:HIS481 4.9 79.2 1.0 C E:CYS476 4.9 62.4 1.0 N E:ILE477 4.9 67.9 1.0

H.Wang, H.Wang, W.Gong. N/A N/A.