Zinc in PDB 2prt: Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna

The structure of Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna, PDB code: 2prt was solved by R.Stoll, B.M.Lee, E.W.Debler, J.H.Laity, I.A.Wilson, H.J.Dyson, P.E.Wright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	N/A / 3.15
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	86.879, 86.879, 171.202, 90.00, 90.00, 120.00
R / Rfree (%)	23.6 / 27.7

The binding sites of Zinc atom in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna (pdb code 2prt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna, PDB code: 2prt:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:0.3 occ:1.00 NE2 A:HIS343 2.2 73.2 1.0 NE2 A:HIS347 2.3 0.7 1.0 SG A:CYS330 2.4 88.8 1.0 SG A:CYS325 2.8 0.4 1.0 O A:CYS330 2.9 0.6 1.0 CB A:CYS325 2.9 0.4 1.0 CD2 A:HIS347 3.2 0.7 1.0 CE1 A:HIS343 3.2 73.2 1.0 CD2 A:HIS343 3.2 73.2 1.0 CE1 A:HIS347 3.2 0.7 1.0 CB A:CYS330 3.3 88.8 1.0 C A:CYS330 3.9 0.6 1.0 ND1 A:HIS347 4.3 0.7 1.0 CG A:HIS347 4.3 0.7 1.0 CA A:CYS330 4.3 0.6 1.0 CG A:LYS332 4.3 91.6 1.0 ND1 A:HIS343 4.3 73.2 1.0 CG A:HIS343 4.3 73.2 1.0 CB A:TYR327 4.3 0.8 1.0 CA A:CYS325 4.3 0.9 1.0 CD A:LYS332 4.4 91.6 1.0 C A:CYS325 4.6 0.9 1.0 O A:CYS325 4.7 0.9 1.0 O A:TYR327 4.9 95.6 1.0 N A:TYR327 4.9 95.6 1.0

Zinc binding site 2 out of 4 in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:88.7 occ:1.00 NE2 A:HIS373 2.2 70.3 1.0 NE2 A:HIS377 2.3 96.7 1.0 SG A:CYS360 2.4 0.0 1.0 SG A:CYS355 2.5 0.2 1.0 CB A:CYS355 3.0 0.2 1.0 CD2 A:HIS373 3.1 70.3 1.0 CE1 A:HIS377 3.3 96.7 1.0 CD2 A:HIS377 3.3 96.7 1.0 CB A:CYS360 3.3 0.0 1.0 CE1 A:HIS373 3.3 70.3 1.0 O A:CYS360 3.9 0.3 1.0 CB A:PHE357 3.9 0.3 1.0 CG A:HIS373 4.3 70.3 1.0 ND1 A:HIS373 4.3 70.3 1.0 ND1 A:HIS377 4.4 96.7 1.0 CG A:HIS377 4.4 96.7 1.0 CA A:CYS360 4.5 0.3 1.0 CA A:CYS355 4.5 0.9 1.0 C A:CYS360 4.5 0.3 1.0 CG A:PHE357 4.6 0.3 1.0 CD2 A:PHE357 4.8 0.3 1.0

Zinc binding site 3 out of 4 in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:88.7 occ:1.00 NE2 A:HIS405 2.0 65.6 1.0 SG A:CYS388 2.3 60.0 1.0 NE2 A:HIS401 2.3 81.7 1.0 SG A:CYS385 2.4 63.5 1.0 CE1 A:HIS405 2.9 65.6 1.0 CB A:CYS388 2.9 60.0 1.0 CD2 A:HIS405 3.0 65.6 1.0 CE1 A:HIS401 3.1 81.7 1.0 N A:CYS388 3.3 91.2 1.0 CD2 A:HIS401 3.3 81.7 1.0 CB A:CYS385 3.6 63.5 1.0 CA A:CYS388 3.7 91.2 1.0 ND1 A:HIS405 4.0 65.6 1.0 CG A:HIS405 4.1 65.6 1.0 ND1 A:HIS401 4.2 81.7 1.0 CB A:THR387 4.3 48.0 0.5 CG A:HIS401 4.3 81.7 1.0 C A:THR387 4.4 69.0 1.0 C A:CYS388 4.7 91.2 1.0 CA A:THR387 4.7 69.0 1.0 O A:HIS401 4.9 49.3 1.0 CG2 A:THR387 4.9 48.0 0.5 N A:THR387 4.9 69.0 1.0 CA A:CYS385 5.0 64.0 1.0

Zinc binding site 4 out of 4 in the Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn204 b:88.7 occ:1.00 NE2 A:HIS431 2.2 86.6 1.0 SG A:CYS413 2.2 50.6 1.0 NE2 A:HIS435 2.3 74.0 1.0 SG A:CYS418 2.5 95.6 1.0 CD2 A:HIS431 2.8 86.6 1.0 CB A:CYS418 2.9 95.6 1.0 CB A:CYS413 2.9 50.6 1.0 CD2 A:HIS435 3.1 74.0 1.0 O A:CYS418 3.2 0.8 1.0 CE1 A:HIS431 3.4 86.6 1.0 CE1 A:HIS435 3.4 74.0 1.0 C A:CYS418 4.0 0.8 1.0 CG A:HIS431 4.0 86.6 1.0 CA A:CYS418 4.0 0.8 1.0 ND1 A:HIS431 4.3 86.6 1.0 CG A:HIS435 4.3 74.0 1.0 CA A:CYS413 4.4 67.2 1.0 CB A:TRP415 4.4 81.5 1.0 ND1 A:HIS435 4.4 74.0 1.0 CG A:LYS420 4.5 60.4 1.0 CB A:LYS420 4.7 60.4 1.0 CG A:TRP415 4.8 81.5 1.0 N A:LYS420 4.9 85.0 1.0 C A:CYS413 4.9 67.2 1.0 CD A:LYS420 5.0 60.4 1.0 CD2 A:HIS432 5.0 59.1 1.0

R.Stoll, B.M.Lee, E.W.Debler, J.H.Laity, I.A.Wilson, H.J.Dyson, P.E.Wright. Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to Dna J.Mol.Biol. V. 372 1227 2007.
ISSN: ISSN 0022-2836
PubMed: 17716689
DOI: 10.1016/J.JMB.2007.07.017