Zinc in PDB 8im5: Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form
Enzymatic activity of Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form
All present enzymatic activity of Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form:
2.3.2.31;
Zinc Binding Sites:
The binding sites of Zinc atom in the Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form
(pdb code 8im5). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the
Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form, PDB code: 8im5:
Jump to Zinc binding site number:
1;
2;
Zinc binding site 1 out
of 2 in 8im5
Go back to
Zinc Binding Sites List in 8im5
Zinc binding site 1 out
of 2 in the Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form
![](/pictures/ZN/pdb/im/8im5-ZN-sphere_01.jpg) Mono view
![](/pictures/ZN/pdb/im/8im5-ZN-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn101
b:0.0
occ:1.00
|
SG
|
A:CYS13
|
2.3
|
0.0
|
1.0
|
HD2
|
A:PRO14
|
2.7
|
0.0
|
1.0
|
HB2
|
A:CYS30
|
2.7
|
0.0
|
1.0
|
HB3
|
A:ARG32
|
2.7
|
0.0
|
1.0
|
HB2
|
A:CYS27
|
2.8
|
0.0
|
1.0
|
HB2
|
A:ARG32
|
2.8
|
0.0
|
1.0
|
HB2
|
A:CYS13
|
2.8
|
0.0
|
1.0
|
ZN
|
A:ZN102
|
3.0
|
0.0
|
1.0
|
HB3
|
A:CYS27
|
3.0
|
0.0
|
1.0
|
CB
|
A:CYS13
|
3.1
|
0.0
|
1.0
|
CB
|
A:ARG32
|
3.2
|
0.0
|
1.0
|
H
|
A:ARG32
|
3.3
|
0.0
|
1.0
|
CB
|
A:CYS27
|
3.3
|
0.0
|
1.0
|
HZ3
|
A:TRP11
|
3.3
|
0.0
|
1.0
|
H
|
A:GLY15
|
3.4
|
0.0
|
1.0
|
HA
|
A:CYS13
|
3.6
|
0.0
|
1.0
|
HH2
|
A:TRP11
|
3.6
|
0.0
|
1.0
|
CB
|
A:CYS30
|
3.7
|
0.0
|
1.0
|
CD
|
A:PRO14
|
3.7
|
0.0
|
1.0
|
SG
|
A:CYS27
|
3.8
|
0.0
|
1.0
|
CA
|
A:CYS13
|
3.8
|
0.0
|
1.0
|
HD2
|
A:ARG32
|
3.9
|
0.0
|
1.0
|
SG
|
A:CYS30
|
4.0
|
0.0
|
1.0
|
HG2
|
A:PRO14
|
4.0
|
0.0
|
1.0
|
HB3
|
A:CYS13
|
4.0
|
0.0
|
1.0
|
HD3
|
A:ARG32
|
4.0
|
0.0
|
1.0
|
N
|
A:ARG32
|
4.1
|
0.0
|
1.0
|
CZ3
|
A:TRP11
|
4.1
|
0.0
|
1.0
|
H
|
A:CYS30
|
4.2
|
0.0
|
1.0
|
HB3
|
A:CYS30
|
4.2
|
0.0
|
1.0
|
CA
|
A:ARG32
|
4.2
|
0.0
|
1.0
|
N
|
A:PRO14
|
4.3
|
0.0
|
1.0
|
CH2
|
A:TRP11
|
4.3
|
0.0
|
1.0
|
CD
|
A:ARG32
|
4.3
|
0.0
|
1.0
|
N
|
A:GLY15
|
4.3
|
0.0
|
1.0
|
CG
|
A:ARG32
|
4.3
|
0.0
|
1.0
|
HA3
|
A:GLY15
|
4.3
|
0.0
|
1.0
|
C
|
A:CYS13
|
4.4
|
0.0
|
1.0
|
H
|
A:CYS31
|
4.4
|
0.0
|
1.0
|
HD3
|
A:PRO14
|
4.4
|
0.0
|
1.0
|
CG
|
A:PRO14
|
4.4
|
0.0
|
1.0
|
H
|
A:CYS27
|
4.4
|
0.0
|
1.0
|
O
|
A:ARG32
|
4.6
|
0.0
|
1.0
|
HG2
|
A:ARG32
|
4.7
|
0.0
|
1.0
|
H
|
A:CYS16
|
4.7
|
0.0
|
1.0
|
CA
|
A:CYS30
|
4.7
|
0.0
|
1.0
|
CA
|
A:CYS27
|
4.7
|
0.0
|
1.0
|
N
|
A:CYS31
|
4.8
|
0.0
|
1.0
|
N
|
A:CYS30
|
4.8
|
0.0
|
1.0
|
CA
|
A:GLY15
|
4.9
|
0.0
|
1.0
|
C
|
A:ARG32
|
4.9
|
0.0
|
1.0
|
|
Zinc binding site 2 out
of 2 in 8im5
Go back to
Zinc Binding Sites List in 8im5
Zinc binding site 2 out
of 2 in the Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form
![](/pictures/ZN/pdb/im/8im5-ZN-sphere_02.jpg) Mono view
![](/pictures/ZN/pdb/im/8im5-ZN-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Solution Structure of the Mouse HOIL1-L Nzf Domain in the Free Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn102
b:0.0
occ:1.00
|
SG
|
A:CYS13
|
2.1
|
0.0
|
1.0
|
SG
|
A:CYS16
|
2.5
|
0.0
|
1.0
|
SG
|
A:CYS30
|
2.5
|
0.0
|
1.0
|
SG
|
A:CYS27
|
2.5
|
0.0
|
1.0
|
HB2
|
A:MET29
|
2.7
|
0.0
|
1.0
|
H
|
A:CYS30
|
2.7
|
0.0
|
1.0
|
ZN
|
A:ZN101
|
3.0
|
0.0
|
1.0
|
HB2
|
A:CYS30
|
3.0
|
0.0
|
1.0
|
CB
|
A:CYS13
|
3.3
|
0.0
|
1.0
|
CB
|
A:CYS30
|
3.3
|
0.0
|
1.0
|
N
|
A:CYS30
|
3.3
|
0.0
|
1.0
|
HB3
|
A:CYS13
|
3.4
|
0.0
|
1.0
|
HB3
|
A:CYS27
|
3.4
|
0.0
|
1.0
|
HB2
|
A:CYS13
|
3.4
|
0.0
|
1.0
|
CB
|
A:CYS27
|
3.5
|
0.0
|
1.0
|
CB
|
A:MET29
|
3.7
|
0.0
|
1.0
|
HB2
|
A:CYS27
|
3.8
|
0.0
|
1.0
|
HB3
|
A:MET29
|
3.8
|
0.0
|
1.0
|
H
|
A:CYS16
|
3.9
|
0.0
|
1.0
|
CA
|
A:CYS30
|
3.9
|
0.0
|
1.0
|
CB
|
A:CYS16
|
4.0
|
0.0
|
1.0
|
H
|
A:MET29
|
4.0
|
0.0
|
1.0
|
N
|
A:CYS16
|
4.0
|
0.0
|
1.0
|
HA3
|
A:GLY15
|
4.1
|
0.0
|
1.0
|
O
|
A:CYS16
|
4.1
|
0.0
|
1.0
|
C
|
A:MET29
|
4.1
|
0.0
|
1.0
|
HB2
|
A:PHE18
|
4.2
|
0.0
|
1.0
|
H
|
A:CYS31
|
4.2
|
0.0
|
1.0
|
HB3
|
A:CYS30
|
4.2
|
0.0
|
1.0
|
HB3
|
A:CYS16
|
4.3
|
0.0
|
1.0
|
HB3
|
A:PHE18
|
4.3
|
0.0
|
1.0
|
H
|
A:GLY15
|
4.3
|
0.0
|
1.0
|
C
|
A:GLY15
|
4.3
|
0.0
|
1.0
|
CA
|
A:MET29
|
4.3
|
0.0
|
1.0
|
CA
|
A:CYS16
|
4.4
|
0.0
|
1.0
|
N
|
A:MET29
|
4.5
|
0.0
|
1.0
|
CA
|
A:GLY15
|
4.6
|
0.0
|
1.0
|
HA
|
A:CYS30
|
4.6
|
0.0
|
1.0
|
CA
|
A:CYS13
|
4.6
|
0.0
|
1.0
|
HG3
|
A:MET29
|
4.7
|
0.0
|
1.0
|
C
|
A:CYS16
|
4.7
|
0.0
|
1.0
|
N
|
A:GLY15
|
4.7
|
0.0
|
1.0
|
H
|
A:PHE18
|
4.7
|
0.0
|
1.0
|
CB
|
A:PHE18
|
4.8
|
0.0
|
1.0
|
H
|
A:ARG32
|
4.8
|
0.0
|
1.0
|
CG
|
A:MET29
|
4.8
|
0.0
|
1.0
|
HB2
|
A:CYS16
|
4.8
|
0.0
|
1.0
|
N
|
A:CYS31
|
4.9
|
0.0
|
1.0
|
HD2
|
A:PRO14
|
4.9
|
0.0
|
1.0
|
O
|
A:GLY15
|
4.9
|
0.0
|
1.0
|
C
|
A:CYS30
|
4.9
|
0.0
|
1.0
|
C
|
A:CYS13
|
4.9
|
0.0
|
1.0
|
CA
|
A:CYS27
|
4.9
|
0.0
|
1.0
|
|
Reference:
E.Walinda,
K.Sugase,
N.Ishii,
M.Shirakawa,
K.Iwai,
D.Morimoto.
Solution Structure of the Hoil-1L Nzf Domain Reveals A Conformational Switch Regulating Linear Ubiquitin Affinity J.Biol.Chem. 05165 2023.
ISSN: ESSN 1083-351X
DOI: 10.1016/J.JBC.2023.105165
Page generated: Thu Dec 28 13:17:51 2023
|