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: Thu Oct 17 01:18:17 2024
|