Zinc in PDB 8e7a: Crystal Structure of the P53 (Y107H) Core Domain Orthorhombic P Form

The structure of Crystal Structure of the P53 (Y107H) Core Domain Orthorhombic P Form, PDB code: 8e7a was solved by S.Lovell, L.Liu, K.P.Battaile, S.Miller, J.Karanicolas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.37 / 1.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	51.14, 109.484, 33.865, 90, 90, 90
R / Rfree (%)	14.5 / 17.4

The binding sites of Zinc atom in the Crystal Structure of the P53 (Y107H) Core Domain Orthorhombic P Form (pdb code 8e7a). 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 Crystal Structure of the P53 (Y107H) Core Domain Orthorhombic P Form, PDB code: 8e7a:

Zinc binding site 1 out of 1 in the Crystal Structure of the P53 (Y107H) Core Domain Orthorhombic P Form


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 P53 (Y107H) Core Domain Orthorhombic P Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:14.3 occ:1.00 ND1 A:HIS179 2.1 14.2 1.0 SG A:CYS238 2.3 13.2 1.0 SG A:CYS242 2.3 14.1 1.0 SG A:CYS176 2.3 14.0 1.0 CE1 A:HIS179 3.0 14.6 1.0 CG A:HIS179 3.1 14.3 1.0 CB A:CYS242 3.1 13.4 1.0 CB A:CYS238 3.2 12.5 1.0 CB A:HIS179 3.4 15.0 1.0 CB A:CYS176 3.5 13.6 1.0 CA A:CYS238 3.9 11.1 1.0 N A:CYS176 3.9 12.7 1.0 O A:HOH704 4.1 37.0 1.0 NE2 A:HIS179 4.2 15.4 1.0 CD2 A:HIS179 4.2 15.3 1.0 CA A:CYS176 4.3 12.9 1.0 N A:HIS179 4.5 14.1 1.0 CA A:CYS242 4.5 13.0 1.0 CA A:HIS179 4.6 14.0 1.0 N A:ASN239 4.6 12.2 1.0 O A:MET237 4.6 12.0 1.0 O A:HOH594 4.7 15.4 1.0 C A:CYS238 4.8 12.3 1.0 O A:CYS176 4.8 14.2 1.0 C A:CYS176 4.9 14.2 1.0 N A:CYS238 5.0 10.8 1.0 O A:HOH631 5.0 28.7 1.0

A.Indeglia, J.C.Leung, S.A.Miller, J.I.Leu, J.F.Dougherty, N.L.Clarke, N.A.Kirven, C.Shao, L.Ke, S.Lovell, T.Barnoud, D.Y.Lu, C.Lin, T.Kannan, K.P.Battaile, T.H.L.Yang, I.Batista Oliva, D.T.Claiborne, P.Vogel, L.Liu, Q.Liu, Y.Nefedova, J.Cassel, N.Auslander, A.V.Kossenkov, J.Karanicolas, M.E.Murphy. An African-Specific Variant of TP53 Reveals PADI4 As A Regulator of P53-Mediated Tumor Suppression. Cancer Discov 2023.
ISSN: ESSN 2159-8290
PubMed: 37140445
DOI: 10.1158/2159-8290.CD-22-1315