Zinc in PDB 5g05: Cryo-Em Structure of Combined Apo Phosphorylated Apc

The binding sites of Zinc atom in the Cryo-Em Structure of Combined Apo Phosphorylated Apc (pdb code 5g05). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Cryo-Em Structure of Combined Apo Phosphorylated Apc, PDB code: 5g05:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Cryo-Em Structure of Combined Apo Phosphorylated Apc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Combined Apo Phosphorylated Apc within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1085 b:0.0 occ:1.00 SG B:CYS23 2.5 0.0 1.0 SG B:CYS26 2.6 0.7 1.0 SG B:CYS59 2.7 0.0 1.0 CB B:CYS59 2.8 0.0 1.0 ND1 B:HIS56 2.9 0.8 1.0 CB B:CYS23 3.2 0.0 1.0 CB B:CYS26 3.4 0.2 1.0 CB B:HIS56 3.5 0.7 1.0 N B:CYS26 3.6 0.3 1.0 CG B:HIS56 3.6 0.3 1.0 N B:HIS56 3.8 0.1 1.0 CE1 B:HIS56 4.0 0.5 1.0 CA B:CYS26 4.1 0.6 1.0 CB B:ILE25 4.1 0.5 1.0 CA B:HIS56 4.2 0.3 1.0 CA B:CYS59 4.3 0.1 1.0 CB B:CYS34 4.4 0.0 1.0 O B:HIS56 4.5 0.8 1.0 CG2 B:ILE25 4.5 0.9 1.0 CA B:CYS23 4.6 0.0 1.0 C B:ILE25 4.6 0.7 1.0 N B:ILE25 4.6 0.7 1.0 CA B:ILE25 4.7 0.2 1.0 N B:CYS59 4.8 0.1 1.0 C B:HIS56 4.8 0.3 1.0 CD2 B:HIS56 4.8 0.2 1.0 C B:PHE55 4.9 0.1 1.0 C B:CYS23 4.9 0.0 1.0 C B:CYS26 5.0 0.9 1.0 NE2 B:HIS56 5.0 0.3 1.0

Zinc binding site 2 out of 3 in the Cryo-Em Structure of Combined Apo Phosphorylated Apc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Combined Apo Phosphorylated Apc within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1086 b:0.0 occ:1.00 SG B:CYS73 2.5 0.0 1.0 ND1 B:HIS53 2.5 0.8 1.0 SG B:CYS76 2.7 0.4 1.0 CG B:HIS53 3.0 0.3 1.0 SG B:CYS51 3.1 0.1 1.0 CB B:CYS51 3.2 0.8 1.0 CB B:CYS73 3.2 0.0 1.0 CB B:HIS53 3.3 0.9 1.0 CB B:CYS76 3.3 0.5 1.0 CE1 B:HIS53 3.4 0.8 1.0 N B:CYS76 3.8 0.3 1.0 CD2 B:HIS53 4.0 0.9 1.0 O B:CYS51 4.1 0.0 1.0 NE2 B:HIS53 4.2 0.8 1.0 CA B:CYS76 4.2 0.1 1.0 N B:HIS53 4.3 0.2 1.0 C B:CYS51 4.3 0.7 1.0 CA B:CYS51 4.4 0.5 1.0 CB B:MET75 4.4 0.1 1.0 CA B:HIS53 4.4 0.0 1.0 CA B:CYS73 4.7 0.0 1.0 C B:MET75 4.8 0.5 1.0 C B:CYS76 5.0 0.6 1.0 CA B:MET75 5.0 0.9 1.0

Zinc binding site 3 out of 3 in the Cryo-Em Structure of Combined Apo Phosphorylated Apc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Combined Apo Phosphorylated Apc within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1087 b:0.5 occ:1.00 ND1 B:HIS58 3.0 0.5 1.0 SG B:CYS34 3.1 0.0 1.0 N B:CYS37 3.3 0.6 1.0 CB B:CYS44 3.3 0.5 1.0 CB B:CYS37 3.4 0.7 1.0 SG B:CYS44 3.4 0.7 1.0 CE1 B:HIS58 3.5 0.9 1.0 O B:CYS34 3.7 0.8 1.0 CB B:ASP36 3.8 0.0 1.0 CA B:CYS37 3.8 0.5 1.0 N B:CYS34 3.9 0.6 1.0 CB B:CYS34 4.0 0.0 1.0 CG B:HIS58 4.1 0.1 1.0 O B:CYS37 4.1 0.8 1.0 C B:CYS34 4.1 0.8 1.0 C B:ASP36 4.1 0.7 1.0 N B:ASP36 4.2 1.0 1.0 CA B:CYS34 4.2 0.3 1.0 SG B:CYS37 4.2 0.1 1.0 CA B:ASP36 4.3 0.6 1.0 CG B:ASP36 4.4 0.1 1.0 CA B:CYS44 4.4 0.1 1.0 C B:CYS37 4.4 0.0 1.0 CB B:HIS58 4.6 0.0 1.0 O B:VAL39 4.6 0.0 1.0 NE2 B:HIS58 4.7 0.5 1.0 CB B:CYS33 4.7 0.9 1.0 OD2 B:ASP36 4.8 0.1 1.0 OD1 B:ASP36 4.8 0.1 1.0 CD2 B:HIS58 4.9 0.6 1.0 C B:CYS33 5.0 0.0 1.0

S.Zhang, L.Chang, C.Alfieri, Z.Zhang, J.Yang, S.Maslen, M.Skehel, D.Barford. Molecular Mechanism of Apc/C Activation By Mitotic Phosphorylation. Nature V. 533 260 2016.
ISSN: ISSN 0028-0836
PubMed: 27120157
DOI: 10.1038/NATURE17973