Zinc in PDB 5mct: New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG1)

The structure of New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG1), PDB code: 5mct 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)	46.53 / 1.45
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	137.486, 49.460, 68.503, 90.00, 93.63, 90.00
R / Rfree (%)	14.4 / 18.9

The binding sites of Zinc atom in the New Insights Into the Role of Dna Shape on Its Recognition By P53 Proteins (Complex P53DBD-LHG1) (pdb code 5mct). 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-LHG1), PDB code: 5mct:
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-LHG1)


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-LHG1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:11.1 occ:1.00 ND1 A:HIS179 2.0 9.7 1.0 SG A:CYS238 2.3 10.4 1.0 SG A:CYS176 2.3 10.4 1.0 SG A:CYS242 2.4 8.3 1.0 CE1 A:HIS179 2.9 11.8 1.0 HB2 A:HIS179 2.9 13.7 1.0 HB3 A:CYS242 2.9 13.1 1.0 HE1 A:HIS179 3.0 14.2 1.0 CG A:HIS179 3.0 10.6 1.0 CB A:CYS242 3.1 10.9 1.0 HB3 A:CYS238 3.2 9.8 1.0 HB3 A:CYS176 3.2 12.5 1.0 CB A:CYS238 3.3 8.2 1.0 H A:CYS176 3.3 9.9 1.0 HA A:CYS238 3.4 9.1 1.0 CB A:CYS176 3.4 10.4 1.0 HB2 A:CYS242 3.4 13.1 1.0 CB A:HIS179 3.5 11.4 1.0 H A:HIS179 3.8 12.7 1.0 CA A:CYS238 3.9 7.6 1.0 H A:ASN239 3.9 7.8 1.0 NE2 A:HIS179 4.0 14.6 1.0 HB3 A:HIS179 4.0 13.7 1.0 N A:CYS176 4.1 8.3 1.0 CD2 A:HIS179 4.1 14.5 1.0 HB2 A:CYS238 4.1 9.8 1.0 HB2 A:CYS176 4.2 12.5 1.0 CA A:CYS176 4.3 10.0 1.0 N A:HIS179 4.4 10.6 1.0 N A:ASN239 4.5 6.5 1.0 CA A:CYS242 4.5 10.3 1.0 HD2 A:HIS178 4.6 19.1 1.0 CA A:HIS179 4.6 9.1 1.0 HA A:CYS242 4.6 12.3 1.0 O A:MET237 4.7 9.8 1.0 HD11 A:LEU137 4.7 24.0 1.0 HB3 A:HIS178 4.7 11.5 1.0 O A:HOH504 4.7 12.3 1.0 C A:CYS238 4.7 7.6 1.0 HE2 A:HIS179 4.8 17.6 1.0 HE A:ARG175 4.9 13.5 1.0 O A:CYS176 4.9 11.7 1.0 HB3 A:ARG175 4.9 12.9 1.0 C A:CYS176 4.9 10.4 1.0 HA A:ARG175 4.9 10.6 1.0 HD2 A:HIS179 5.0 17.4 1.0 N A:CYS238 5.0 8.8 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-LHG1)


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-LHG1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:9.3 occ:1.00 ND1 B:HIS179 2.0 13.0 1.0 SG B:CYS242 2.3 11.3 1.0 SG B:CYS176 2.3 9.1 1.0 SG B:CYS238 2.3 10.6 1.0 HB2 B:HIS179 2.9 8.9 1.0 CE1 B:HIS179 2.9 13.8 1.0 HB3 B:CYS242 2.9 12.4 1.0 CG B:HIS179 3.0 9.9 1.0 HE1 B:HIS179 3.0 16.5 1.0 CB B:CYS242 3.2 10.3 1.0 HB3 B:CYS238 3.2 10.7 1.0 HB3 B:CYS176 3.2 11.6 1.0 H B:CYS176 3.3 11.2 1.0 CB B:CYS238 3.3 8.9 1.0 HA B:CYS238 3.3 9.6 1.0 CB B:CYS176 3.4 9.7 1.0 HB2 B:CYS242 3.4 12.4 1.0 CB B:HIS179 3.4 7.4 1.0 H B:HIS179 3.7 13.6 1.0 CA B:CYS238 3.8 8.0 1.0 H B:ASN239 4.0 10.8 1.0 HB3 B:HIS179 4.0 8.9 1.0 N B:CYS176 4.0 9.3 1.0 NE2 B:HIS179 4.0 14.8 1.0 CD2 B:HIS179 4.1 13.8 1.0 HB2 B:CYS238 4.1 10.7 1.0 HB2 B:CYS176 4.2 11.6 1.0 CA B:CYS176 4.3 9.7 1.0 N B:HIS179 4.4 11.3 1.0 N B:ASN239 4.5 9.0 1.0 HD2 B:HIS178 4.6 16.8 1.0 CA B:CYS242 4.6 8.9 1.0 CA B:HIS179 4.6 12.2 1.0 O B:MET237 4.6 10.6 1.0 HA B:CYS242 4.7 10.6 1.0 HD11 B:LEU137 4.7 23.6 1.0 HB3 B:HIS178 4.7 13.0 1.0 O B:HOH508 4.7 12.6 1.0 C B:CYS238 4.7 7.6 1.0 HE2 B:HIS179 4.8 17.7 1.0 HE B:ARG175 4.8 14.9 1.0 HB3 B:ARG175 4.9 13.0 1.0 O B:CYS176 4.9 10.6 1.0 C B:CYS176 4.9 9.6 1.0 HA B:ARG175 4.9 11.2 1.0 N B:CYS238 5.0 7.1 1.0 HD2 B:HIS179 5.0 16.6 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