Zinc in PDB 1tup: Tumor Suppressor P53 Complexed with Dna

The structure of Tumor Suppressor P53 Complexed with Dna, PDB code: 1tup was solved by Y.Cho, S.Gorina, P.D.Jeffrey, N.P.Pavletich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 2.20
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	117.500, 67.900, 108.800, 90.00, 105.50, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Zinc atom in the Tumor Suppressor P53 Complexed with Dna (pdb code 1tup). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Tumor Suppressor P53 Complexed with Dna, PDB code: 1tup:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Tumor Suppressor P53 Complexed with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Tumor Suppressor P53 Complexed with Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn951 b:27.1 occ:1.00 ND1 A:HIS179 2.0 25.7 1.0 SG A:CYS242 2.2 28.2 1.0 SG A:CYS238 2.3 24.6 1.0 SG A:CYS176 2.3 30.6 1.0 CE1 A:HIS179 2.9 26.8 1.0 CG A:HIS179 3.1 23.7 1.0 CB A:CYS242 3.1 25.9 1.0 CB A:CYS176 3.4 19.2 1.0 CB A:HIS179 3.5 28.0 1.0 CB A:CYS238 3.6 20.2 1.0 CA A:CYS238 3.9 15.1 1.0 N A:CYS176 4.0 16.7 1.0 N A:ASN239 4.0 17.5 1.0 NE2 A:HIS179 4.1 25.5 1.0 CD2 A:HIS179 4.2 24.2 1.0 CA A:CYS176 4.3 13.1 1.0 N A:HIS179 4.4 31.5 1.0 C A:CYS238 4.4 13.8 1.0 O A:HOH2139 4.5 48.8 1.0 CA A:HIS179 4.5 30.1 1.0 CA A:CYS242 4.6 28.9 1.0 O A:HOH2123 4.8 36.0 1.0 O A:ASN239 4.9 20.5 1.0 C A:CYS176 4.9 17.6 1.0 O A:MET237 5.0 19.0 1.0

Zinc binding site 2 out of 3 in the Tumor Suppressor P53 Complexed with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Tumor Suppressor P53 Complexed with Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn952 b:28.0 occ:1.00 ND1 B:HIS179 2.1 23.6 1.0 SG B:CYS238 2.2 24.9 1.0 SG B:CYS242 2.2 28.0 1.0 SG B:CYS176 2.3 29.7 1.0 CE1 B:HIS179 3.0 20.4 1.0 CG B:HIS179 3.1 18.3 1.0 CB B:CYS238 3.2 21.8 1.0 CB B:CYS242 3.2 27.4 1.0 CB B:CYS176 3.4 22.6 1.0 CB B:HIS179 3.5 23.2 1.0 CA B:CYS238 3.8 19.0 1.0 N B:CYS176 4.0 26.1 1.0 NE2 B:HIS179 4.1 21.4 1.0 CD2 B:HIS179 4.2 19.2 1.0 CA B:CYS176 4.3 24.2 1.0 O B:HOH2153 4.3 54.3 1.0 N B:ASN239 4.5 15.2 1.0 CA B:CYS242 4.5 31.0 1.0 N B:HIS179 4.6 24.1 1.0 CA B:HIS179 4.6 22.5 1.0 C B:CYS238 4.7 15.1 1.0 O B:MET237 4.7 21.8 1.0 O B:HOH2037 4.7 18.3 1.0 O B:CYS176 4.9 31.2 1.0 C B:CYS176 4.9 29.5 1.0 N B:CYS238 5.0 18.9 1.0

Zinc binding site 3 out of 3 in the Tumor Suppressor P53 Complexed with Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Tumor Suppressor P53 Complexed with Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn953 b:41.3 occ:1.00 ND1 C:HIS179 2.1 43.1 1.0 SG C:CYS242 2.1 36.9 1.0 SG C:CYS238 2.3 41.1 1.0 SG C:CYS176 2.4 46.3 1.0 CG C:HIS179 3.0 41.6 1.0 CB C:CYS242 3.1 36.9 1.0 CB C:HIS179 3.2 42.8 1.0 CE1 C:HIS179 3.2 43.5 1.0 CB C:CYS238 3.4 34.6 1.0 CB C:CYS176 3.4 40.3 1.0 N C:CYS176 3.8 31.9 1.0 CA C:CYS238 3.9 35.0 1.0 CD2 C:HIS179 4.2 41.0 1.0 CA C:CYS176 4.3 36.9 1.0 NE2 C:HIS179 4.3 41.5 1.0 CA C:HIS179 4.4 42.2 1.0 N C:ASN239 4.4 29.3 1.0 N C:HIS179 4.4 46.4 1.0 CA C:CYS242 4.5 38.6 1.0 C C:CYS238 4.7 33.7 1.0 O C:HOH2060 4.7 31.6 1.0 O C:HOH2220 4.9 31.0 1.0 O C:CYS176 4.9 32.3 1.0 C C:ARG175 4.9 35.2 1.0 O C:MET237 4.9 42.5 1.0 C C:CYS176 5.0 38.2 1.0

Y.Cho, S.Gorina, P.D.Jeffrey, N.P.Pavletich. Crystal Structure of A P53 Tumor Suppressor-Dna Complex: Understanding Tumorigenic Mutations. Science V. 265 346 1994.
ISSN: ISSN 0036-8075
PubMed: 8023157