Zinc in PDB 6k8n: Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III

All present enzymatic activity of Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III:
5.99.1.2;

The structure of Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III, PDB code: 6k8n was solved by H.Q.Wang, J.H.Zhang, X.Zheng, Z.F.Zheng, Y.H.Dong, L.Huang, Y.Gong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.10
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	110.671, 90.040, 156.184, 90.00, 100.52, 90.00
R / Rfree (%)	20.3 / 24.7

The binding sites of Zinc atom in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III (pdb code 6k8n). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III, PDB code: 6k8n:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III


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 the Sulfolobus Solfataricus Topoisomerase III within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:52.3 occ:1.00 ND1 A:HIS618 2.1 50.0 1.0 SG A:CYS615 2.2 43.3 1.0 SG A:CYS602 2.4 58.4 1.0 SG A:CYS605 2.5 55.9 1.0 CE1 A:HIS618 3.0 50.1 1.0 CG A:HIS618 3.1 40.5 1.0 CB A:CYS615 3.1 53.9 1.0 CB A:CYS602 3.3 64.8 1.0 CB A:HIS618 3.5 37.3 1.0 CB A:CYS605 3.6 66.0 1.0 N A:CYS615 3.8 48.6 1.0 CA A:CYS615 4.1 47.9 1.0 NE2 A:HIS618 4.1 46.8 1.0 N A:CYS605 4.1 69.8 1.0 N A:HIS618 4.2 31.9 1.0 CD2 A:HIS618 4.2 43.9 1.0 CA A:CYS605 4.4 70.5 1.0 CA A:HIS618 4.5 39.9 1.0 C A:CYS615 4.7 46.2 1.0 CB A:LEU607 4.7 63.4 1.0 C A:TYR604 4.8 66.2 1.0 CA A:CYS602 4.8 65.7 1.0 C A:CYS605 4.9 71.0 1.0 CD1 A:LEU607 4.9 53.9 1.0 O A:CYS615 4.9 44.6 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III


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 the Sulfolobus Solfataricus Topoisomerase III within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn801 b:38.7 occ:1.00 ND1 B:HIS618 2.2 40.2 1.0 SG B:CYS615 2.3 32.6 1.0 SG B:CYS602 2.5 41.0 1.0 SG B:CYS605 2.6 44.8 1.0 CE1 B:HIS618 3.1 41.8 1.0 CG B:HIS618 3.1 35.4 1.0 CB B:CYS602 3.2 45.9 1.0 CB B:CYS615 3.3 45.2 1.0 CB B:HIS618 3.5 35.4 1.0 CB B:CYS605 3.6 52.9 1.0 N B:CYS615 3.9 46.3 1.0 N B:CYS605 4.0 52.9 1.0 CA B:CYS615 4.1 43.2 1.0 NE2 B:HIS618 4.2 44.5 1.0 CD2 B:HIS618 4.2 40.8 1.0 CA B:CYS605 4.4 56.6 1.0 N B:HIS618 4.4 33.7 1.0 C B:TYR604 4.4 53.1 1.0 CB B:TYR604 4.5 45.0 1.0 O B:HOH1239 4.5 39.7 1.0 CA B:HIS618 4.6 35.7 1.0 N B:TYR604 4.6 49.8 1.0 CA B:CYS602 4.7 48.1 1.0 CA B:TYR604 4.8 47.7 1.0 CB B:LEU607 4.8 48.8 1.0 C B:CYS615 4.8 36.4 1.0 O B:CYS615 4.8 33.7 1.0 C B:CYS605 4.9 56.5 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III


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 the Sulfolobus Solfataricus Topoisomerase III within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn801 b:60.1 occ:1.00 ND1 C:HIS618 2.2 61.5 1.0 SG C:CYS615 2.3 53.0 1.0 SG C:CYS602 2.4 55.0 1.0 SG C:CYS605 2.5 61.6 1.0 CE1 C:HIS618 3.0 60.3 1.0 CB C:CYS602 3.1 60.6 1.0 CG C:HIS618 3.2 56.6 1.0 CB C:CYS615 3.3 56.5 1.0 CB C:CYS605 3.5 62.0 1.0 CB C:HIS618 3.6 55.7 1.0 N C:CYS615 3.8 59.2 1.0 N C:CYS605 4.0 55.4 1.0 CA C:CYS615 4.2 59.4 1.0 NE2 C:HIS618 4.2 60.6 1.0 CD2 C:HIS618 4.3 59.4 1.0 N C:HIS618 4.3 53.6 1.0 CA C:CYS605 4.3 63.2 1.0 CA C:HIS618 4.5 53.3 1.0 CA C:CYS602 4.6 63.6 1.0 C C:TYR604 4.7 62.5 1.0 C C:CYS605 4.8 65.6 1.0 C C:CYS615 4.9 56.3 1.0 CB C:TYR604 4.9 63.4 1.0 N C:TYR604 4.9 66.3 1.0 CE1 C:TYR656 4.9 66.1 1.0 CB C:LEU607 5.0 53.0 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the Sulfolobus Solfataricus Topoisomerase III


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 the Sulfolobus Solfataricus Topoisomerase III within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn801 b:54.8 occ:1.00 ND1 D:HIS618 2.2 59.2 1.0 SG D:CYS605 2.4 51.8 1.0 SG D:CYS615 2.4 44.6 1.0 SG D:CYS602 2.5 53.7 1.0 CG D:HIS618 3.2 54.8 1.0 CB D:CYS602 3.2 57.6 1.0 CE1 D:HIS618 3.2 59.0 1.0 CB D:CYS615 3.2 56.0 1.0 CB D:HIS618 3.5 51.7 1.0 CB D:CYS605 3.6 60.6 1.0 N D:CYS615 3.8 56.2 1.0 N D:CYS605 3.9 65.2 1.0 CA D:CYS615 4.1 53.7 1.0 CA D:CYS605 4.3 61.3 1.0 N D:HIS618 4.3 49.1 1.0 NE2 D:HIS618 4.3 50.6 1.0 CD2 D:HIS618 4.3 52.6 1.0 CA D:HIS618 4.5 53.9 1.0 C D:TYR604 4.6 64.5 1.0 CA D:CYS602 4.7 53.0 1.0 CB D:LEU607 4.7 49.6 1.0 C D:CYS605 4.8 62.6 1.0 N D:TYR604 4.8 68.8 1.0 C D:CYS615 4.8 57.0 1.0 CB D:TYR604 4.9 59.1 1.0 CA D:TYR604 5.0 62.2 1.0

H.Q.Wang, J.H.Zhang, X.Zheng, Z.F.Zheng, Y.H.Dong, L.Huang, Y.Gong. Crystal Structures of the Sulfolobus Solfataricus Topoisomerase III Reveal That Its C-Terminal Novel Zinc Finger Part Is A Unique Decatenation Domain To Be Published.