Zinc in PDB 3ts8: Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element

The structure of Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element, PDB code: 3ts8 was solved by T.D.Halazonetis, S.Emamzadah, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.80
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	163.810, 169.203, 55.261, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 28.3

The binding sites of Zinc atom in the Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element (pdb code 3ts8). 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 A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element, PDB code: 3ts8:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element


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 A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:29.6 occ:1.00 ND1 A:HIS179 2.3 37.6 1.0 SG A:CYS242 2.4 38.2 1.0 SG A:CYS176 2.4 34.1 1.0 SG A:CYS238 2.6 43.5 1.0 CB A:CYS242 3.1 31.0 1.0 CG A:HIS179 3.1 38.5 1.0 CB A:HIS179 3.2 38.2 1.0 CB A:CYS176 3.4 37.0 1.0 CE1 A:HIS179 3.4 39.6 1.0 CB A:CYS238 3.8 30.9 1.0 N A:CYS176 4.0 32.9 1.0 CE B:MET243 4.1 64.3 1.0 CA A:CYS238 4.2 33.8 1.0 CA A:CYS176 4.3 35.5 1.0 CD2 A:HIS179 4.3 35.6 1.0 NE2 A:HIS179 4.4 38.9 1.0 N A:HIS179 4.5 41.3 1.0 CA A:HIS179 4.5 41.6 1.0 N A:ASN239 4.5 34.7 1.0 CA A:CYS242 4.5 35.6 1.0 O A:MET237 4.6 33.6 1.0 O A:CYS176 4.9 38.6 1.0 C A:CYS238 4.9 34.3 1.0 C A:CYS176 4.9 37.9 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element


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 A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1 b:53.0 occ:1.00 ND1 B:HIS179 2.5 64.5 1.0 SG B:CYS242 2.5 54.6 1.0 SG B:CYS176 2.6 69.2 1.0 SG B:CYS238 2.6 67.0 1.0 CE1 B:HIS179 3.1 63.6 1.0 CB B:CYS242 3.1 54.2 1.0 CG B:HIS179 3.2 63.5 1.0 CB B:CYS176 3.4 66.8 1.0 CB B:CYS238 3.7 65.0 1.0 CB B:HIS179 3.7 63.3 1.0 NE2 B:HIS179 3.9 60.3 1.0 CD2 B:HIS179 4.0 62.5 1.0 CA B:CYS238 4.1 63.4 1.0 N B:CYS176 4.1 66.2 1.0 N B:ASN239 4.3 64.6 1.0 CA B:CYS176 4.4 65.4 1.0 CA B:CYS242 4.6 55.7 1.0 O B:MET237 4.7 62.8 1.0 N B:HIS179 4.7 61.3 1.0 C B:CYS238 4.8 63.6 1.0 CA B:HIS179 4.9 63.4 1.0 SD A:MET243 4.9 62.3 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element


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 A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1 b:28.2 occ:1.00 ND1 C:HIS179 2.3 23.0 1.0 SG C:CYS242 2.5 21.2 1.0 SG C:CYS176 2.5 25.6 1.0 SG C:CYS238 2.5 36.0 1.0 CG C:HIS179 3.2 24.0 1.0 CB C:CYS242 3.2 21.8 1.0 CE1 C:HIS179 3.2 29.4 1.0 CB C:HIS179 3.4 27.7 1.0 CB C:CYS176 3.5 23.5 1.0 CB C:CYS238 3.6 26.1 1.0 CA C:CYS238 4.0 23.3 1.0 N C:CYS176 4.1 20.2 1.0 CD2 C:HIS179 4.3 25.9 1.0 NE2 C:HIS179 4.3 23.4 1.0 N C:HIS179 4.4 29.3 1.0 CA C:CYS176 4.4 23.6 1.0 O C:MET237 4.4 26.6 1.0 N C:ASN239 4.5 27.7 1.0 CA C:HIS179 4.5 31.3 1.0 CA C:CYS242 4.7 21.8 1.0 C C:CYS238 4.8 25.0 1.0 O C:HOH31 4.9 26.7 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element


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 A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A(P21) P53-Response Element within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1 b:25.2 occ:1.00 ND1 D:HIS179 2.2 32.2 1.0 SG D:CYS242 2.4 28.1 1.0 SG D:CYS176 2.4 26.9 1.0 SG D:CYS238 2.5 35.7 1.0 CG D:HIS179 3.1 34.3 1.0 CB D:CYS242 3.1 28.2 1.0 CB D:HIS179 3.2 35.5 1.0 CE1 D:HIS179 3.3 32.8 1.0 CB D:CYS176 3.5 31.4 1.0 CB D:CYS238 3.8 29.3 1.0 CA D:CYS238 4.1 31.9 1.0 N D:CYS176 4.1 32.5 1.0 CD2 D:HIS179 4.3 32.9 1.0 NE2 D:HIS179 4.4 33.9 1.0 CA D:CYS176 4.4 32.1 1.0 CA D:HIS179 4.5 39.8 1.0 N D:ASN239 4.5 33.7 1.0 N D:HIS179 4.5 37.7 1.0 O D:MET237 4.5 29.8 1.0 CA D:CYS242 4.6 33.3 1.0 C D:CYS238 4.8 33.4 1.0 O D:HOH74 4.9 33.0 1.0 O D:CYS176 4.9 32.3 1.0

S.Emamzadah, L.Tropia, T.D.Halazonetis. Crystal Structure of A Multidomain Human P53 Tetramer Bound to the Natural CDKN1A (P21) P53-Response Element. Mol Cancer Res V. 9 1493 2011.
ISSN: ISSN 1541-7786
PubMed: 21933903
DOI: 10.1158/1541-7786.MCR-11-0351