Zinc in PDB 2ahi: Structural Basis of Dna Recognition By P53 Tetramers (Complex III)

The structure of Structural Basis of Dna Recognition By P53 Tetramers (Complex III), PDB code: 2ahi was solved by M.Kitayner, H.Rozenberg, N.Kessler, D.Rabinovich, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.49 / 1.85
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	54.552, 58.190, 77.545, 83.08, 87.94, 73.56
R / Rfree (%)	16.2 / 22.5

The binding sites of Zinc atom in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III) (pdb code 2ahi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III), PDB code: 2ahi:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Basis of Dna Recognition By P53 Tetramers (Complex III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:30.0 occ:1.00 ND1 A:HIS179 2.0 23.4 1.0 SG A:CYS242 2.2 29.5 1.0 SG A:CYS238 2.4 29.3 1.0 SG A:CYS176 2.4 27.9 1.0 CE1 A:HIS179 2.9 26.6 1.0 CG A:HIS179 3.1 27.9 1.0 CB A:CYS242 3.1 30.0 1.0 CB A:CYS238 3.3 32.7 1.0 CB A:HIS179 3.5 25.2 1.0 CB A:CYS176 3.5 28.5 1.0 CA A:CYS238 3.7 26.5 1.0 N A:CYS176 4.0 27.2 1.0 NE2 A:HIS179 4.1 27.0 1.0 CD2 A:HIS179 4.2 28.4 1.0 CA A:CYS176 4.3 28.3 1.0 N A:HIS179 4.4 27.8 1.0 N A:ASN239 4.5 24.7 1.0 CA A:CYS242 4.5 27.9 1.0 CA A:HIS179 4.6 27.5 1.0 C A:CYS238 4.6 27.4 1.0 O A:MET237 4.6 25.4 1.0 O A:HOH302 4.7 22.6 1.0 O A:HOH477 4.7 48.4 1.0 N A:CYS238 4.9 23.0 1.0 O A:CYS176 5.0 28.3 1.0 C A:CYS176 5.0 29.1 1.0

Zinc binding site 2 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Basis of Dna Recognition By P53 Tetramers (Complex III) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1 b:31.4 occ:1.00 ND1 B:HIS179 2.1 28.0 1.0 SG B:CYS238 2.3 27.0 1.0 SG B:CYS242 2.4 30.2 1.0 SG B:CYS176 2.4 29.2 1.0 CB B:CYS242 3.0 27.3 1.0 CE1 B:HIS179 3.0 38.8 1.0 CG B:HIS179 3.1 29.5 1.0 CB B:CYS238 3.3 28.8 1.0 CB B:HIS179 3.5 33.8 1.0 CB B:CYS176 3.5 29.9 1.0 CA B:CYS238 3.7 27.5 1.0 N B:CYS176 4.1 29.3 1.0 NE2 B:HIS179 4.2 28.1 1.0 CD2 B:HIS179 4.2 30.6 1.0 CA B:CYS176 4.4 31.2 1.0 CE A:MET243 4.4 40.2 1.0 N B:HIS179 4.4 32.7 1.0 CA B:CYS242 4.4 29.0 1.0 N B:ASN239 4.5 26.8 1.0 O B:MET237 4.5 30.9 1.0 CA B:HIS179 4.6 32.8 1.0 O B:HOH301 4.6 32.8 1.0 C B:CYS238 4.6 27.0 1.0 N B:CYS238 4.9 28.6 1.0 C B:CYS176 5.0 29.6 1.0

Zinc binding site 3 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural Basis of Dna Recognition By P53 Tetramers (Complex III) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1 b:29.5 occ:1.00 ND1 C:HIS179 2.1 25.0 1.0 SG C:CYS242 2.3 28.4 1.0 SG C:CYS238 2.4 26.0 1.0 SG C:CYS176 2.4 28.0 1.0 CE1 C:HIS179 3.0 31.3 1.0 CG C:HIS179 3.1 24.9 1.0 CB C:CYS242 3.1 26.7 1.0 CB C:CYS238 3.2 26.9 1.0 CB C:HIS179 3.5 23.9 1.0 CB C:CYS176 3.5 26.6 1.0 CA C:CYS238 3.8 25.6 1.0 N C:CYS176 4.1 27.9 1.0 NE2 C:HIS179 4.2 26.1 1.0 CD2 C:HIS179 4.2 30.9 1.0 CA C:CYS176 4.4 28.0 1.0 N C:HIS179 4.5 26.3 1.0 N C:ASN239 4.5 23.7 1.0 O C:HOH321 4.5 25.5 1.0 CA C:CYS242 4.5 29.6 1.0 CA C:HIS179 4.6 27.1 1.0 C C:CYS238 4.7 26.1 1.0 O C:MET237 4.7 25.5 1.0 O C:CYS176 4.9 28.3 1.0 N C:CYS238 4.9 23.0 1.0 O C:HOH349 5.0 32.7 1.0

Zinc binding site 4 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex III)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structural Basis of Dna Recognition By P53 Tetramers (Complex III) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1 b:29.8 occ:1.00 ND1 D:HIS179 2.0 25.9 1.0 SG D:CYS242 2.2 29.6 1.0 SG D:CYS238 2.3 29.0 1.0 SG D:CYS176 2.4 26.7 1.0 CE1 D:HIS179 2.9 34.3 1.0 CB D:CYS242 3.1 25.6 1.0 CG D:HIS179 3.1 28.1 1.0 CB D:CYS238 3.1 26.6 1.0 CB D:HIS179 3.5 30.5 1.0 CB D:CYS176 3.5 27.3 1.0 CA D:CYS238 3.7 29.6 1.0 N D:CYS176 4.0 28.0 1.0 NE2 D:HIS179 4.1 28.6 1.0 CD2 D:HIS179 4.2 31.5 1.0 CA D:CYS176 4.3 25.0 1.0 CA D:CYS242 4.4 27.3 1.0 N D:ASN239 4.5 27.9 1.0 N D:HIS179 4.6 29.1 1.0 O D:MET237 4.6 27.1 1.0 CE C:MET243 4.6 38.2 1.0 CA D:HIS179 4.6 30.1 1.0 C D:CYS238 4.7 28.9 1.0 O D:HOH303 4.7 27.9 1.0 N D:CYS238 4.9 28.4 1.0 O D:HOH319 5.0 37.4 1.0 C D:CYS176 5.0 28.4 1.0 O D:CYS176 5.0 27.3 1.0

M.Kitayner, H.Rozenberg, N.Kessler, D.Rabinovich, L.Shaulov, T.E.Haran, Z.Shakked. Structural Basis of Dna Recognition By P53 Tetramers Mol.Cell V. 22 741 2006.
ISSN: ISSN 1097-2765
PubMed: 16793544
DOI: 10.1016/J.MOLCEL.2006.05.015