Zinc in PDB 5ztb: Structure of Sulfurtransferase

All present enzymatic activity of Structure of Sulfurtransferase:
2.8.1.15;

The structure of Structure of Sulfurtransferase, PDB code: 5ztb was solved by Y.Tanaka, M.Chen, S.Narai, M.Yao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.90 / 2.20
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	165.622, 82.770, 138.495, 90.00, 115.86, 90.00
R / Rfree (%)	21.6 / 24.1

The structure of Structure of Sulfurtransferase also contains other interesting chemical elements:

Iron

(Fe)

12 atoms

The binding sites of Zinc atom in the Structure of Sulfurtransferase (pdb code 5ztb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of Sulfurtransferase, PDB code: 5ztb:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn402 b:42.4 occ:1.00 ND1 B:HIS25 2.1 34.1 1.0 SG B:CYS6 2.4 32.3 1.0 SG B:CYS3 2.4 31.9 1.0 SG B:CYS22 2.4 28.4 1.0 CE1 B:HIS25 3.0 36.5 1.0 CG B:HIS25 3.2 42.1 1.0 CB B:CYS3 3.2 29.0 1.0 CB B:CYS6 3.3 31.6 1.0 CB B:CYS22 3.4 35.0 1.0 CB B:HIS25 3.6 35.1 1.0 N B:CYS6 3.6 28.8 1.0 N B:CYS22 4.0 27.5 1.0 CA B:CYS6 4.1 36.2 1.0 NE2 B:HIS25 4.1 38.5 1.0 CD2 B:HIS25 4.2 32.2 1.0 CA B:CYS22 4.3 29.1 1.0 CB B:VAL5 4.3 39.1 1.0 N B:HIS25 4.6 30.0 1.0 CA B:CYS3 4.7 29.5 1.0 C B:VAL5 4.7 34.1 1.0 CA B:HIS25 4.8 35.5 1.0 C B:CYS6 4.8 41.0 1.0 CG1 B:VAL5 4.8 32.9 1.0 C B:CYS22 4.9 29.8 1.0 CA B:VAL5 4.9 31.3 1.0 N B:GLY7 4.9 37.7 1.0 N B:VAL5 5.0 37.4 1.0

Zinc binding site 2 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn403 b:39.8 occ:1.00 SG B:CYS277 2.2 36.6 1.0 SG B:CYS286 2.3 35.3 1.0 SG B:CYS289 2.4 33.3 1.0 SG B:CYS274 2.4 39.2 1.0 CB B:CYS289 3.3 35.1 1.0 CB B:CYS274 3.3 44.3 1.0 CB B:CYS277 3.4 45.1 1.0 CB B:CYS286 3.5 31.1 1.0 N B:CYS277 3.7 41.1 1.0 N B:CYS286 4.0 32.7 1.0 CA B:CYS277 4.1 43.4 1.0 N B:CYS289 4.2 34.0 1.0 CA B:CYS286 4.3 33.4 1.0 CA B:CYS289 4.4 34.3 1.0 OH B:TYR139 4.4 36.2 1.0 CB B:ARG276 4.4 49.3 1.0 CE2 B:TYR139 4.5 36.3 1.0 O B:CYS286 4.7 41.3 1.0 CA B:CYS274 4.8 46.0 1.0 C B:ARG276 4.8 48.7 1.0 C B:CYS286 4.8 37.2 1.0 O B:HOH554 4.8 39.7 1.0 C B:CYS277 4.8 38.9 1.0 CZ B:TYR139 4.8 39.8 1.0 CG1 B:VAL285 4.9 39.8 1.0 N B:GLY278 4.9 40.4 1.0 CA B:ARG276 5.0 41.5 1.0

Zinc binding site 3 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:77.5 occ:0.82 SG A:CYS3 2.2 89.3 1.0 SG A:CYS22 2.2 79.7 1.0 ND1 A:HIS25 2.2 85.0 1.0 SG A:CYS6 2.2 0.9 1.0 CE1 A:HIS25 2.8 88.0 1.0 CG A:HIS25 2.9 90.5 1.0 CB A:CYS6 3.0 93.5 1.0 CB A:CYS22 3.3 82.8 1.0 CB A:HIS25 3.5 79.3 1.0 NE2 A:HIS25 3.6 79.8 1.0 CB A:CYS3 3.6 89.8 1.0 CD2 A:HIS25 3.7 86.5 1.0 N A:CYS6 3.8 88.4 1.0 N A:CYS22 3.8 75.5 1.0 CA A:CYS6 4.0 88.1 1.0 CA A:CYS22 4.2 83.4 1.0 C A:VAL5 4.3 94.2 1.0 N A:HIS25 4.6 77.0 1.0 CA A:HIS25 4.7 79.9 1.0 CB A:VAL5 4.8 98.5 1.0 CG A:GLU24 4.8 94.2 1.0 N A:VAL5 4.8 93.4 1.0 CA A:VAL5 4.9 93.8 1.0 O A:VAL5 4.9 97.5 1.0 C A:CYS22 4.9 76.9 1.0 CA A:CYS3 4.9 83.8 1.0 OE2 A:GLU24 5.0 0.6 1.0 C A:LEU21 5.0 74.7 1.0

Zinc binding site 4 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:53.6 occ:1.00 SG A:CYS277 2.2 53.2 1.0 SG A:CYS274 2.3 60.5 1.0 SG A:CYS289 2.3 53.5 1.0 SG A:CYS286 2.4 51.0 1.0 CB A:CYS289 3.2 46.7 1.0 CB A:CYS274 3.4 71.3 1.0 CB A:CYS277 3.5 60.9 1.0 CB A:CYS286 3.6 56.6 1.0 N A:CYS277 3.7 67.5 1.0 N A:CYS286 4.0 57.4 1.0 CA A:CYS277 4.2 59.5 1.0 N A:CYS289 4.2 44.3 1.0 CA A:CYS286 4.3 51.7 1.0 CA A:CYS289 4.3 52.5 1.0 CB A:ARG276 4.3 74.1 1.0 OH A:TYR139 4.5 56.3 1.0 CE2 A:TYR139 4.6 43.2 1.0 O A:CYS286 4.7 54.6 1.0 C A:ARG276 4.8 72.0 1.0 CA A:CYS274 4.8 79.8 1.0 C A:CYS286 4.8 63.3 1.0 CG1 A:VAL285 4.8 63.5 1.0 N A:GLY278 4.9 61.5 1.0 C A:CYS277 4.9 57.3 1.0 CA A:ARG276 5.0 75.7 1.0 CZ A:TYR139 5.0 52.8 1.0

Zinc binding site 5 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn402 b:87.9 occ:0.99 ND1 C:HIS25 2.1 88.8 1.0 SG C:CYS22 2.3 78.2 1.0 SG C:CYS3 2.4 88.0 1.0 CB C:CYS6 2.6 94.7 1.0 CG C:HIS25 3.0 97.7 1.0 CE1 C:HIS25 3.1 0.5 1.0 CB C:CYS3 3.2 91.5 1.0 CB C:HIS25 3.3 87.2 1.0 CB C:CYS22 3.4 85.2 1.0 N C:CYS6 3.7 94.5 1.0 N C:CYS22 3.7 88.6 1.0 CA C:CYS6 3.7 95.5 1.0 SG C:CYS6 3.7 0.9 1.0 CA C:CYS22 4.1 89.3 1.0 CD2 C:HIS25 4.1 95.1 1.0 NE2 C:HIS25 4.2 99.6 1.0 CG2 C:VAL5 4.2 92.5 1.0 CA C:HIS25 4.6 86.9 1.0 CA C:CYS3 4.6 94.5 1.0 N C:HIS25 4.6 88.4 1.0 N C:GLY7 4.7 0.9 1.0 C C:CYS6 4.8 0.8 1.0 C C:CYS22 4.8 88.9 1.0 C C:VAL5 4.8 95.4 1.0 C C:LEU21 4.9 88.6 1.0 O C:CYS22 5.0 88.8 1.0

Zinc binding site 6 out of 6 in the Structure of Sulfurtransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Sulfurtransferase within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn403 b:57.6 occ:1.00 SG C:CYS289 2.2 60.9 1.0 SG C:CYS286 2.3 49.5 1.0 SG C:CYS277 2.4 62.7 1.0 SG C:CYS274 2.4 60.4 1.0 CB C:CYS289 3.2 60.6 1.0 CB C:CYS286 3.5 55.1 1.0 CB C:CYS277 3.5 63.1 1.0 CB C:CYS274 3.5 56.9 1.0 N C:CYS277 3.7 71.3 1.0 N C:CYS286 4.0 61.5 1.0 CA C:CYS277 4.2 67.4 1.0 N C:CYS289 4.2 53.0 1.0 CA C:CYS286 4.2 64.0 1.0 CB C:ARG276 4.2 70.5 1.0 CA C:CYS289 4.3 65.5 1.0 OH C:TYR139 4.6 57.8 1.0 O C:CYS286 4.6 60.4 1.0 CE2 C:TYR139 4.7 48.4 1.0 C C:CYS286 4.7 55.1 1.0 C C:ARG276 4.8 71.6 1.0 C C:CYS277 4.8 64.5 1.0 CG1 C:VAL285 4.9 61.0 1.0 N C:GLY278 4.9 64.6 1.0 CA C:ARG276 4.9 64.3 1.0 CA C:CYS274 5.0 62.2 1.0 N C:ARG276 5.0 59.0 1.0

Y.Tanaka, M.Chen, S.Narai, M.Yao. Structure of Sulfurtransferase To Be Published.