Zinc in PDB 5mf7: New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45)

The structure of New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45), PDB code: 5mf7 was solved by H.Rozenberg, Y.Diskin-Posner, D.Golovenko, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.20 / 1.59
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	138.056, 50.034, 67.202, 90.00, 92.52, 90.00
R / Rfree (%)	19.8 / 23.3

The binding sites of Zinc atom in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45) (pdb code 5mf7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45), PDB code: 5mf7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:12.1 occ:1.00 ND1 A:HIS179 2.1 13.0 1.0 SG A:CYS176 2.2 12.0 1.0 SG A:CYS238 2.3 13.5 1.0 SG A:CYS242 2.4 13.8 1.0 CE1 A:HIS179 3.0 16.2 1.0 CG A:HIS179 3.1 13.9 1.0 CB A:CYS242 3.1 14.6 1.0 CB A:CYS238 3.2 10.5 1.0 CB A:CYS176 3.3 11.1 1.0 CB A:HIS179 3.5 13.0 1.0 CA A:CYS238 3.7 13.2 1.0 NE2 A:HIS179 4.1 16.9 1.0 N A:CYS176 4.1 11.1 1.0 CD2 A:HIS179 4.2 17.3 1.0 CA A:CYS176 4.3 9.8 1.0 N A:HIS179 4.3 12.4 1.0 O A:MET237 4.4 35.9 0.6 O A:MET237 4.4 7.8 0.4 N A:ASN239 4.5 13.6 1.0 CA A:HIS179 4.6 18.1 1.0 CA A:CYS242 4.6 12.9 1.0 C A:CYS238 4.7 14.7 1.0 O A:HOH484 4.8 14.3 1.0 N A:CYS238 4.8 11.3 1.0 C A:CYS176 4.9 13.3 1.0 O A:CYS176 4.9 13.8 1.0

Zinc binding site 2 out of 2 in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-GADD45) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:13.7 occ:1.00 ND1 B:HIS179 2.0 10.7 1.0 SG B:CYS238 2.3 13.1 1.0 SG B:CYS242 2.4 13.6 1.0 SG B:CYS176 2.4 13.0 1.0 CE1 B:HIS179 2.9 14.2 1.0 CG B:HIS179 3.1 12.4 1.0 CB B:CYS242 3.1 14.1 1.0 CB B:CYS238 3.2 11.3 1.0 CB B:CYS176 3.3 12.1 1.0 CB B:HIS179 3.5 13.5 1.0 CA B:CYS238 3.7 17.1 1.0 NE2 B:HIS179 4.1 15.6 1.0 N B:CYS176 4.1 13.7 1.0 CD2 B:HIS179 4.2 15.6 1.0 CA B:CYS176 4.3 10.5 1.0 N B:HIS179 4.3 13.0 1.0 O B:MET237 4.4 17.3 1.0 CA B:HIS179 4.6 13.9 1.0 N B:ASN239 4.6 13.9 1.0 CA B:CYS242 4.6 12.1 1.0 C B:CYS238 4.7 13.9 1.0 N B:CYS238 4.8 6.8 1.0 O B:HOH486 4.8 13.0 1.0 C B:CYS176 4.8 14.4 1.0 O B:CYS176 4.8 15.8 1.0

D.Golovenko, B.Brauning, P.Vyas, T.E.Haran, H.Rozenberg, Z.Shakked. New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins. Structure V. 26 1237 2018.
ISSN: ISSN 1878-4186
PubMed: 30057026
DOI: 10.1016/J.STR.2018.06.006