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Zinc in PDB 2mt5: Isolated Ring Domain

Zinc Binding Sites:

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 2mt5

Go back to Zinc Binding Sites List in 2mt5
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 2mt5

Go back to Zinc Binding Sites List in 2mt5
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 2mt5

Go back to Zinc Binding Sites List in 2mt5
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

Reference:

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
Page generated: Thu Oct 17 02:08:08 2024

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