Zinc in PDB 2mt5: Isolated Ring Domain

The binding sites of Zinc atom in the Isolated Ring Domain (pdb code 2mt5). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Isolated Ring Domain, PDB code: 2mt5:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Isolated Ring Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Isolated Ring Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn101 b:0.0 occ:1.00 HD1 A:HIS42 2.3 0.0 1.0 HB3 A:CYS45 2.4 0.0 1.0 HG A:CYS9 2.4 0.0 1.0 HB A:ILE11 2.5 0.0 1.0 HB2 A:CYS45 2.8 0.0 1.0 CB A:CYS45 2.8 0.0 1.0 ND1 A:HIS42 2.9 0.0 1.0 SG A:CYS45 2.9 0.0 1.0 SG A:CYS9 3.0 0.0 1.0 SG A:CYS12 3.0 0.0 1.0 H A:HIS42 3.0 0.0 1.0 HD2 A:PHE41 3.0 0.0 1.0 HD12 A:ILE11 3.3 0.0 1.0 HG A:CYS12 3.4 0.0 1.0 HB2 A:HIS42 3.4 0.0 1.0 HG22 A:ILE11 3.4 0.0 1.0 CB A:ILE11 3.5 0.0 1.0 H A:CYS12 3.7 0.0 1.0 CE1 A:HIS42 3.7 0.0 1.0 HG21 A:ILE11 3.7 0.0 1.0 CG A:HIS42 3.7 0.0 1.0 HB3 A:PHE41 3.7 0.0 1.0 H A:ILE11 3.8 0.0 1.0 CG2 A:ILE11 3.8 0.0 1.0 CD2 A:PHE41 3.8 0.0 1.0 HE1 A:HIS42 3.9 0.0 1.0 HB3 A:CYS9 3.9 0.0 1.0 N A:HIS42 3.9 0.0 1.0 HG A:CYS45 3.9 0.0 1.0 H A:ILE46 4.0 0.0 1.0 CB A:HIS42 4.0 0.0 1.0 CB A:CYS9 4.1 0.0 1.0 CD1 A:ILE11 4.2 0.0 1.0 N A:CYS12 4.3 0.0 1.0 CA A:CYS45 4.3 0.0 1.0 HB2 A:CYS9 4.4 0.0 1.0 CA A:ILE11 4.4 0.0 1.0 HA A:PHE41 4.4 0.0 1.0 N A:ILE11 4.4 0.0 1.0 CG1 A:ILE11 4.5 0.0 1.0 HE2 A:PHE41 4.5 0.0 1.0 CB A:PHE41 4.5 0.0 1.0 CA A:HIS42 4.5 0.0 1.0 CG A:PHE41 4.5 0.0 1.0 CE2 A:PHE41 4.5 0.0 1.0 H A:GLY10 4.6 0.0 1.0 O A:HIS42 4.6 0.0 1.0 N A:ILE46 4.6 0.0 1.0 NE2 A:HIS42 4.7 0.0 1.0 CB A:CYS12 4.7 0.0 1.0 CD2 A:HIS42 4.7 0.0 1.0 C A:ILE11 4.7 0.0 1.0 HA A:CYS45 4.7 0.0 1.0 HD11 A:ILE11 4.8 0.0 1.0 C A:CYS45 4.8 0.0 1.0 HG23 A:ILE11 4.8 0.0 1.0 CA A:PHE41 4.8 0.0 1.0 C A:PHE41 4.8 0.0 1.0 HD13 A:ILE11 4.9 0.0 1.0 H A:CYS45 5.0 0.0 1.0 HB3 A:HIS42 5.0 0.0 1.0 HG13 A:ILE11 5.0 0.0 1.0

Zinc binding site 2 out of 3 in the Isolated Ring Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Isolated Ring Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn102 b:0.0 occ:1.00 HD1 A:HIS44 2.3 0.0 1.0 HE1 A:HIS44 2.5 0.0 1.0 HB2 A:CYS20 2.7 0.0 1.0 HB3 A:CYS30 2.8 0.0 1.0 ND1 A:HIS44 2.8 0.0 1.0 HB3 A:CYS23 2.9 0.0 1.0 CE1 A:HIS44 2.9 0.0 1.0 SG A:CYS30 2.9 0.0 1.0 HB2 A:CYS23 3.0 0.0 1.0 SG A:CYS23 3.0 0.0 1.0 SG A:CYS20 3.0 0.0 1.0 CB A:CYS23 3.1 0.0 1.0 CB A:CYS30 3.4 0.0 1.0 CB A:CYS20 3.4 0.0 1.0 HG A:CYS23 3.6 0.0 1.0 H A:CYS20 3.6 0.0 1.0 HG A:CYS30 3.8 0.0 1.0 HG A:CYS20 4.0 0.0 1.0 HB3 A:CYS20 4.1 0.0 1.0 HB A:VAL25 4.1 0.0 1.0 CG A:HIS44 4.1 0.0 1.0 HB2 A:CYS30 4.2 0.0 1.0 HA A:CYS30 4.2 0.0 1.0 NE2 A:HIS44 4.2 0.0 1.0 N A:CYS20 4.3 0.0 1.0 CA A:CYS30 4.3 0.0 1.0 CA A:CYS20 4.5 0.0 1.0 HB2 A:HIS44 4.6 0.0 1.0 O A:CYS30 4.6 0.0 1.0 HG22 A:VAL25 4.6 0.0 1.0 CA A:CYS23 4.7 0.0 1.0 CD2 A:HIS44 4.8 0.0 1.0 C A:CYS30 4.9 0.0 1.0 CB A:HIS44 5.0 0.0 1.0 HG12 A:VAL25 5.0 0.0 1.0

Zinc binding site 3 out of 3 in the Isolated Ring Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Isolated Ring Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn103 b:0.0 occ:1.00 HB3 A:HIS39 2.4 0.0 1.0 HD1 A:HIS39 2.5 0.0 1.0 HB2 A:HIS39 2.8 0.0 1.0 CB A:HIS39 2.9 0.0 1.0 HG A:CYS59 2.9 0.0 1.0 ND1 A:HIS39 2.9 0.0 1.0 SG A:CYS37 3.0 0.0 1.0 SG A:CYS59 3.0 0.0 1.0 SG A:CYS62 3.0 0.0 1.0 CG A:HIS39 3.1 0.0 1.0 HG A:CYS62 3.1 0.0 1.0 HG2 A:GLN36 3.4 0.0 1.0 HG A:CYS37 3.4 0.0 1.0 H A:CYS37 3.6 0.0 1.0 HA3 A:GLY35 3.7 0.0 1.0 HG3 A:MET61 3.9 0.0 1.0 CE1 A:HIS39 4.0 0.0 1.0 HB3 A:CYS59 4.0 0.0 1.0 CB A:CYS59 4.1 0.0 1.0 HZ3 A:TRP66 4.2 0.0 1.0 CD2 A:HIS39 4.2 0.0 1.0 HB2 A:CYS59 4.2 0.0 1.0 H A:CYS62 4.2 0.0 1.0 HE3 A:TRP66 4.2 0.0 1.0 CG A:GLN36 4.3 0.0 1.0 H A:HIS39 4.4 0.0 1.0 CA A:HIS39 4.4 0.0 1.0 HE21 A:GLN36 4.4 0.0 1.0 HB3 A:CYS62 4.5 0.0 1.0 CB A:CYS62 4.5 0.0 1.0 CD A:GLN36 4.5 0.0 1.0 H A:GLN36 4.5 0.0 1.0 HE1 A:HIS39 4.5 0.0 1.0 N A:CYS37 4.5 0.0 1.0 NE2 A:GLN36 4.5 0.0 1.0 HE3 A:MET61 4.6 0.0 1.0 SD A:MET61 4.6 0.0 1.0 NE2 A:HIS39 4.6 0.0 1.0 CB A:CYS37 4.6 0.0 1.0 HG3 A:GLN36 4.6 0.0 1.0 CA A:GLY35 4.7 0.0 1.0 CG A:MET61 4.7 0.0 1.0 N A:GLN36 4.8 0.0 1.0 N A:HIS39 4.8 0.0 1.0 C A:GLY35 4.9 0.0 1.0 HD2 A:PRO60 4.9 0.0 1.0 HD2 A:HIS39 4.9 0.0 1.0 CZ3 A:TRP66 4.9 0.0 1.0 HA A:HIS39 4.9 0.0 1.0 CE3 A:TRP66 4.9 0.0 1.0

N.G.Brown, E.R.Watson, F.Weissmann, M.A.Jarvis, R.Vanderlinden, C.R.Grace, J.J.Frye, R.Qiao, P.Dube, G.Petzold, S.E.Cho, O.Alsharif, J.Bao, I.F.Davidson, J.J.Zheng, A.Nourse, I.Kurinov, J.M.Peters, H.Stark, B.A.Schulman. Mechanism of Polyubiquitination By Human Anaphase-Promoting Complex: Ring Repurposing For Ubiquitin Chain Assembly. Mol.Cell 2014.
ISSN: ISSN 1097-2765
PubMed: 25306923
DOI: 10.1016/J.MOLCEL.2014.09.009