Zinc in PDB 4ui9: Atomic Structure of the Human Anaphase-Promoting Complex

The binding sites of Zinc atom in the Atomic Structure of the Human Anaphase-Promoting Complex (pdb code 4ui9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Atomic Structure of the Human Anaphase-Promoting Complex, PDB code: 4ui9:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Atomic Structure of the Human Anaphase-Promoting Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Atomic Structure of the Human Anaphase-Promoting Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn101 b:0.4 occ:1.00 SG B:CYS23 2.5 0.1 1.0 SG B:CYS26 2.6 0.2 1.0 SG B:CYS59 2.7 0.9 1.0 CB B:CYS59 2.8 0.1 1.0 ND1 B:HIS56 2.9 0.7 1.0 CB B:CYS23 3.2 0.6 1.0 CB B:CYS26 3.3 0.0 1.0 CB B:HIS56 3.4 0.1 1.0 CG B:HIS56 3.6 0.5 1.0 N B:CYS26 3.6 0.6 1.0 N B:HIS56 3.8 0.9 1.0 CE1 B:HIS56 4.0 0.5 1.0 CA B:CYS26 4.1 0.3 1.0 CB B:ILE25 4.1 0.9 1.0 CA B:HIS56 4.2 0.2 1.0 CA B:CYS59 4.3 0.9 1.0 CB B:CYS34 4.3 0.2 1.0 O B:HIS56 4.5 0.6 1.0 CG2 B:ILE25 4.5 0.5 1.0 CA B:CYS23 4.6 1.0 1.0 C B:ILE25 4.6 0.4 1.0 N B:ILE25 4.7 0.5 1.0 CA B:ILE25 4.7 0.7 1.0 N B:CYS59 4.8 0.4 1.0 C B:HIS56 4.8 0.8 1.0 CD2 B:HIS56 4.8 1.0 1.0 C B:CYS23 4.9 0.7 1.0 C B:PHE55 4.9 0.9 1.0 C B:CYS26 5.0 0.8 1.0

Zinc binding site 2 out of 5 in the Atomic Structure of the Human Anaphase-Promoting Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Atomic Structure of the Human Anaphase-Promoting Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn102 b:0.0 occ:1.00 ND1 B:HIS53 2.5 0.3 1.0 SG B:CYS73 2.6 1.0 1.0 SG B:CYS76 2.8 0.3 1.0 CG B:HIS53 3.0 0.5 1.0 SG B:CYS51 3.1 0.9 1.0 CB B:CYS51 3.2 0.1 1.0 CB B:CYS73 3.2 0.5 1.0 CB B:HIS53 3.2 0.2 1.0 CB B:CYS76 3.4 0.7 1.0 CE1 B:HIS53 3.4 0.5 1.0 N B:CYS76 3.8 0.1 1.0 CD2 B:HIS53 4.0 0.7 1.0 O B:CYS51 4.0 0.4 1.0 NE2 B:HIS53 4.1 0.7 1.0 CA B:CYS76 4.2 0.6 1.0 C B:CYS51 4.3 0.9 1.0 N B:HIS53 4.3 0.8 1.0 CA B:CYS51 4.4 0.7 1.0 CB B:MET75 4.4 0.0 1.0 CA B:HIS53 4.4 0.8 1.0 CA B:CYS73 4.7 0.5 1.0 C B:MET75 4.8 0.4 1.0 N B:SER52 5.0 0.7 1.0 C B:CYS76 5.0 0.8 1.0 CA B:MET75 5.0 1.0 1.0

Zinc binding site 3 out of 5 in the Atomic Structure of the Human Anaphase-Promoting Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Atomic Structure of the Human Anaphase-Promoting Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn103 b:0.1 occ:1.00 ND1 B:HIS58 3.0 0.3 1.0 SG B:CYS34 3.1 0.5 1.0 N B:CYS37 3.2 0.1 1.0 CB B:CYS44 3.3 1.0 1.0 SG B:CYS44 3.4 0.6 1.0 CB B:CYS37 3.4 0.5 1.0 CE1 B:HIS58 3.5 0.5 1.0 O B:CYS34 3.6 0.6 1.0 CA B:CYS37 3.8 0.5 1.0 CB B:ASP36 3.8 0.9 1.0 N B:CYS34 3.9 0.8 1.0 CB B:CYS34 4.0 0.2 1.0 CG B:HIS58 4.1 0.9 1.0 C B:CYS34 4.1 0.9 1.0 C B:ASP36 4.1 0.1 1.0 O B:CYS37 4.1 0.5 1.0 N B:ASP36 4.2 0.1 1.0 CA B:CYS34 4.2 0.7 1.0 SG B:CYS37 4.2 0.7 1.0 CA B:ASP36 4.2 0.9 1.0 CG B:ASP36 4.3 0.6 1.0 CA B:CYS44 4.4 0.1 1.0 C B:CYS37 4.4 0.4 1.0 CB B:HIS58 4.5 0.0 1.0 NE2 B:HIS58 4.6 0.8 1.0 O B:VAL39 4.7 0.1 1.0 CB B:CYS33 4.7 0.1 1.0 OD2 B:ASP36 4.8 0.7 1.0 OD1 B:ASP36 4.8 0.5 1.0 CD2 B:HIS58 4.9 0.3 1.0 C B:CYS33 5.0 0.8 1.0

Zinc binding site 4 out of 5 in the Atomic Structure of the Human Anaphase-Promoting Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Atomic Structure of the Human Anaphase-Promoting Complex within 5.0Å range: probe atom residue distance (Å) B Occ S:Zn601 b:0.3 occ:1.00 SG S:CYS378 3.1 0.4 1.0 SG S:CYS381 3.2 0.6 1.0 SG S:CYS396 3.3 0.3 1.0 CB S:CYS378 3.3 0.7 1.0 SG S:CYS401 3.5 0.5 1.0 N S:CYS381 3.6 0.3 1.0 CB S:ARG380 3.7 0.4 1.0 CB S:SER383 3.9 0.5 1.0 CB S:CYS381 4.1 0.3 1.0 CB S:CYS401 4.2 0.5 1.0 CA S:CYS381 4.3 0.0 1.0 CA S:ARG380 4.4 0.7 1.0 CG S:ARG380 4.4 0.6 1.0 C S:ARG380 4.4 0.4 1.0 N S:SER383 4.5 0.4 1.0 N S:ARG380 4.5 0.1 1.0 CD S:ARG380 4.6 0.4 1.0 N S:ASN382 4.6 0.4 1.0 OG S:SER383 4.6 0.1 1.0 C S:CYS381 4.6 0.1 1.0 CA S:CYS378 4.7 0.9 1.0 CB S:ARG398 4.8 0.6 1.0 CA S:SER383 4.9 0.4 1.0 CB S:CYS396 4.9 1.0 1.0 CD S:ARG398 5.0 0.7 1.0

Zinc binding site 5 out of 5 in the Atomic Structure of the Human Anaphase-Promoting Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Atomic Structure of the Human Anaphase-Promoting Complex within 5.0Å range: probe atom residue distance (Å) B Occ S:Zn602 b:0.4 occ:1.00 SG S:CYS409 3.2 0.3 1.0 SG S:CYS419 3.3 0.4 1.0 CB S:CYS406 3.5 0.5 1.0 SG S:CYS406 3.5 0.1 1.0 NE2 S:HIS414 3.7 0.8 1.0 CD2 S:HIS414 3.7 0.9 1.0 O S:ASN412 4.2 0.9 1.0 CB S:CYS409 4.7 0.9 1.0 CE1 S:HIS414 4.8 0.8 1.0 CG S:HIS414 4.9 0.3 1.0 CB S:CYS419 5.0 0.9 1.0 CA S:CYS406 5.0 0.8 1.0

L.Chang, Z.Zhang, J.Yang, S.H.Mclaughlin, D.Barford. Atomic Structure of the Apc and Its Mechanism of Protein Ubiquitination Nature V. 522 450 2015.
ISSN: ISSN 0028-0836
PubMed: 26083744
DOI: 10.1038/NATURE14471