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Zinc in PDB 2jmo: Ibr Domain of Human Parkin

Zinc Binding Sites:

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

Zinc binding site 1 out of 2 in 2jmo

Go back to Zinc Binding Sites List in 2jmo
Zinc binding site 1 out of 2 in the Ibr Domain of Human Parkin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ibr Domain of Human Parkin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:35.5
occ:1.00
SG A:CYS33 2.3 42.1 1.0
SG A:CYS56 2.3 53.1 1.0
SG A:CYS28 2.3 33.1 1.0
SG A:CYS48 2.3 63.3 1.0
HB2 A:CYS28 3.1 100.0 1.0
CB A:CYS28 3.1 53.2 1.0
HB3 A:CYS28 3.2 100.0 1.0
O A:LEU54 3.3 11.3 1.0
HB1 A:ALA35 3.4 100.0 1.0
HB3 A:CYS33 3.4 100.0 1.0
CB A:CYS48 3.5 3.2 1.0
CB A:CYS33 3.5 14.1 1.0
H A:CYS56 3.5 100.0 1.0
HB2 A:CYS48 3.6 100.0 1.0
HB3 A:CYS48 3.7 100.0 1.0
CB A:CYS56 3.7 60.4 1.0
HB2 A:CYS56 3.7 100.0 1.0
HB2 A:ARG30 3.8 100.0 1.0
HB2 A:CYS33 3.9 100.0 1.0
N A:CYS56 3.9 13.0 1.0
HB3 A:LEU54 3.9 100.0 1.0
HG3 A:ARG30 4.0 100.0 1.0
C A:LEU54 4.2 52.1 1.0
H A:ALA35 4.3 100.0 1.0
CA A:CYS56 4.3 32.4 1.0
HA2 A:GLY55 4.4 100.0 1.0
CB A:ALA35 4.4 63.4 1.0
HB2 A:ALA35 4.4 100.0 1.0
HB3 A:CYS56 4.5 100.0 1.0
CA A:CYS28 4.5 71.5 1.0
C A:GLY55 4.6 13.4 1.0
HA A:CYS56 4.6 100.0 1.0
CG A:ARG30 4.6 24.1 1.0
HG2 A:ARG30 4.6 100.0 1.0
CB A:ARG30 4.7 4.3 1.0
O A:CYS33 4.7 73.1 1.0
HA A:CYS28 4.7 100.0 1.0
CA A:CYS33 4.8 62.0 1.0
CA A:CYS48 4.8 52.3 1.0
CA A:GLY55 4.8 1.5 1.0
HB3 A:ALA35 4.8 100.0 1.0
H A:ARG30 4.9 100.0 1.0
C A:CYS33 4.9 21.4 1.0
N A:GLY55 4.9 31.5 1.0
O A:CYS48 4.9 33.4 1.0
CB A:LEU54 4.9 60.2 1.0
HD13 A:LEU54 5.0 100.0 1.0

Zinc binding site 2 out of 2 in 2jmo

Go back to Zinc Binding Sites List in 2jmo
Zinc binding site 2 out of 2 in the Ibr Domain of Human Parkin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ibr Domain of Human Parkin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:42.4
occ:1.00
NE2 A:HIS69 2.1 42.3 1.0
SG A:CYS73 2.3 11.4 1.0
SG A:CYS64 2.3 31.4 1.0
SG A:CYS61 2.3 13.4 1.0
HE1 A:HIS69 2.6 100.0 1.0
CE1 A:HIS69 2.7 12.0 1.0
HB3 A:CYS61 2.9 100.0 1.0
CB A:CYS61 3.1 40.3 1.0
H A:CYS64 3.1 100.0 1.0
CD2 A:HIS69 3.3 70.2 1.0
HB3 A:GLU63 3.4 100.0 1.0
HB2 A:CYS61 3.4 100.0 1.0
HB3 A:CYS64 3.6 100.0 1.0
CB A:CYS73 3.6 14.1 1.0
CB A:CYS64 3.6 75.1 1.0
HA A:CYS73 3.6 100.0 1.0
HB2 A:GLU63 3.7 100.0 1.0
HB3 A:CYS73 3.7 100.0 1.0
N A:CYS64 3.8 3.4 1.0
HD2 A:HIS69 3.8 100.0 1.0
ND1 A:HIS69 3.9 32.0 1.0
CB A:GLU63 4.0 1.2 1.0
CA A:CYS73 4.0 52.2 1.0
H A:CYS73 4.2 100.0 1.0
N A:CYS73 4.2 54.3 1.0
CG A:HIS69 4.2 12.3 1.0
CA A:CYS64 4.3 21.5 1.0
HB2 A:CYS64 4.4 100.0 1.0
CA A:CYS61 4.5 53.2 1.0
HB2 A:CYS73 4.5 100.0 1.0
H A:GLU63 4.6 100.0 1.0
HD1 A:HIS69 4.6 100.0 1.0
C A:GLU63 4.6 1.1 1.0
H A:HIS69 4.6 100.0 1.0
O A:CYS61 4.8 23.2 1.0
CA A:GLU63 4.8 41.3 1.0
C A:CYS61 4.8 25.2 1.0
C A:GLU72 4.9 21.3 1.0
H A:GLU66 4.9 100.0 1.0
N A:GLU63 4.9 31.3 1.0
HA A:CYS61 4.9 100.0 1.0

Reference:

S.A.Beasley, V.A.Hristova, G.S.Shaw. Structure of the Parkin in-Between-Ring Domain Provides Insights For E3-Ligase Dysfunction in Autosomal Recessive Parkinson'S Disease. Proc.Natl.Acad.Sci.Usa V. 104 3095 2007.
ISSN: ISSN 0027-8424
PubMed: 17360614
DOI: 10.1073/PNAS.0610548104
Page generated: Wed Dec 16 03:32:13 2020

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