Zinc in PDB 5mcu: New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG2)

The structure of New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG2), PDB code: 5mcu was solved by D.Golovenko, H.Rozenberg, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.90 / 1.70
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	109.133, 68.422, 69.422, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 20.1

The binding sites of Zinc atom in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG2) (pdb code 5mcu). 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-LHG2), PDB code: 5mcu:
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-LHG2)


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-LHG2) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:14.2 occ:1.00 ND1 A:HIS179 2.0 14.3 1.0 SG A:CYS176 2.3 13.0 1.0 SG A:CYS242 2.4 13.6 1.0 SG A:CYS238 2.4 14.5 1.0 HB3 A:CYS242 2.8 16.8 1.0 CE1 A:HIS179 2.9 14.9 1.0 HB2 A:HIS179 2.9 18.6 1.0 HE1 A:HIS179 3.0 17.9 1.0 HB3 A:CYS238 3.1 16.4 1.0 CG A:HIS179 3.1 15.2 1.0 CB A:CYS242 3.1 14.0 1.0 CB A:CYS238 3.2 13.6 1.0 HB3 A:CYS176 3.3 15.7 1.0 H A:CYS176 3.3 17.2 1.0 HA A:CYS238 3.3 16.4 1.0 HB2 A:CYS242 3.4 16.8 1.0 CB A:CYS176 3.4 13.1 1.0 CB A:HIS179 3.5 15.5 1.0 H A:HIS179 3.8 19.0 1.0 CA A:CYS238 3.8 13.7 1.0 H A:ASN239 3.9 15.1 1.0 NE2 A:HIS179 4.0 18.4 1.0 N A:CYS176 4.1 14.4 1.0 HB3 A:HIS179 4.1 18.6 1.0 HB2 A:CYS238 4.1 16.4 1.0 CD2 A:HIS179 4.1 18.0 1.0 HB2 A:CYS176 4.2 15.7 1.0 CA A:CYS176 4.3 12.8 1.0 N A:HIS179 4.5 15.8 1.0 N A:ASN239 4.5 12.6 1.0 CA A:CYS242 4.5 14.5 1.0 HD11 A:LEU137 4.5 27.3 1.0 HD2 A:HIS178 4.5 26.5 1.0 HA A:CYS242 4.6 17.4 1.0 CA A:HIS179 4.6 16.2 1.0 O A:HOH489 4.6 17.0 1.0 O A:MET237 4.7 15.9 1.0 C A:CYS238 4.7 14.8 1.0 HB3 A:HIS178 4.7 19.4 1.0 HE2 A:HIS179 4.8 22.1 1.0 HB3 A:ARG175 4.9 23.3 1.0 HA A:ARG175 4.9 19.1 1.0 O A:CYS176 5.0 14.8 1.0 N A:CYS238 5.0 14.0 1.0 C A:CYS176 5.0 13.5 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-LHG2)


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-LHG2) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:13.9 occ:1.00 ND1 B:HIS179 2.0 13.2 1.0 SG B:CYS242 2.2 14.4 1.0 SG B:CYS238 2.3 14.8 1.0 SG B:CYS176 2.3 12.3 1.0 HB2 B:HIS179 2.8 21.4 1.0 HB3 B:CYS242 2.9 20.9 1.0 CE1 B:HIS179 2.9 18.9 1.0 CG B:HIS179 3.0 14.2 1.0 HE1 B:HIS179 3.1 22.6 1.0 CB B:CYS242 3.1 17.4 1.0 HB3 B:CYS238 3.2 18.1 1.0 H B:CYS176 3.3 15.1 1.0 HB3 B:CYS176 3.3 23.0 1.0 CB B:CYS238 3.3 15.1 1.0 HA B:CYS238 3.4 17.2 1.0 CB B:HIS179 3.4 17.8 1.0 HB2 B:CYS242 3.4 20.9 1.0 CB B:CYS176 3.5 19.2 1.0 H B:HIS179 3.7 17.8 1.0 CA B:CYS238 3.9 14.3 1.0 HB3 B:HIS179 4.0 21.4 1.0 H B:ASN239 4.0 16.4 1.0 N B:CYS176 4.0 12.6 1.0 NE2 B:HIS179 4.1 19.8 1.0 HB2 B:CYS238 4.1 18.1 1.0 CD2 B:HIS179 4.1 19.4 1.0 HB2 B:CYS176 4.2 23.0 1.0 CA B:CYS176 4.3 12.4 1.0 N B:HIS179 4.4 14.8 1.0 HD2 B:HIS178 4.5 25.1 1.0 HD11 B:LEU137 4.5 25.9 1.0 CA B:HIS179 4.6 16.6 1.0 CA B:CYS242 4.6 16.2 1.0 N B:ASN239 4.6 13.7 1.0 O B:HOH491 4.6 15.8 1.0 HB3 B:HIS178 4.6 17.5 1.0 HA B:CYS242 4.7 19.4 1.0 O B:MET237 4.7 15.4 1.0 C B:CYS238 4.8 13.5 1.0 HB3 B:ARG175 4.8 25.1 1.0 O B:CYS176 4.8 17.1 1.0 HE2 B:HIS179 4.8 23.8 1.0 HA B:ARG175 4.9 19.4 1.0 C B:CYS176 4.9 14.7 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