Zinc in PDB 3d08: Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R

The structure of Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R, PDB code: 3d08 was solved by O.Suad, H.Rozenberg, L.J.W.Shimon, F.Frolow, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.20 / 1.40
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	46.287, 46.287, 327.445, 90.00, 90.00, 120.00
R / Rfree (%)	19.8 / 21.2

The binding sites of Zinc atom in the Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R (pdb code 3d08). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R, PDB code: 3d08:

Zinc binding site 1 out of 1 in the Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human P53 Core Domain with Hot Spot Mutation R249S and Second-Site Suppressor Mutation H168R within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:17.4 occ:1.00 ND1 A:HIS179 2.0 16.0 1.0 SG A:CYS238 2.1 12.3 0.5 SG A:CYS176 2.3 17.3 1.0 SG A:CYS242 2.4 19.3 1.0 SG A:CYS238 2.4 16.9 0.5 CE1 A:HIS179 2.9 15.6 1.0 CG A:HIS179 3.0 14.0 1.0 CB A:CYS242 3.1 20.0 1.0 CB A:CYS176 3.4 18.4 1.0 CB A:HIS179 3.4 17.8 1.0 CB A:CYS238 3.5 18.8 0.5 CB A:CYS238 3.5 19.2 0.5 CA A:CYS238 3.8 14.4 0.5 CA A:CYS238 3.8 15.1 0.5 N A:CYS176 4.1 16.6 1.0 NE2 A:HIS179 4.1 17.2 1.0 CD2 A:HIS179 4.1 19.3 1.0 N A:ASN239 4.2 15.4 1.0 CA A:CYS176 4.3 18.3 1.0 N A:HIS179 4.4 16.9 1.0 CA A:CYS242 4.5 18.8 1.0 CA A:HIS179 4.5 18.8 1.0 C A:CYS238 4.5 16.4 1.0 O A:HOH396 4.7 29.1 1.0 O A:HOH359 4.7 25.4 1.0 O A:MET237 4.9 17.2 1.0 O A:CYS176 4.9 16.1 1.0 O A:ASN239 4.9 13.8 1.0 C A:CYS176 5.0 14.2 1.0

O.Suad, H.Rozenberg, R.Brosh, Y.Diskin-Posner, N.Kessler, L.J.W.Shimon, F.Frolow, A.Liran, V.Rotter, Z.Shakked. Structural Basis of Restoring Sequence-Specific Dna Binding and Transactivation to Mutant P53 By Suppressor Mutations J.Mol.Biol. V. 385 249 2009.
ISSN: ISSN 0022-2836
PubMed: 18996393
DOI: 10.1016/J.JMB.2008.10.063