Zinc in PDB 7mka: Structure of Ec+Ec (Leading Ec-Focused)
Enzymatic activity of Structure of Ec+Ec (Leading Ec-Focused)
All present enzymatic activity of Structure of Ec+Ec (Leading Ec-Focused):
2.7.7.6;
Other elements in 7mka:
The structure of Structure of Ec+Ec (Leading Ec-Focused) also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Structure of Ec+Ec (Leading Ec-Focused)
(pdb code 7mka). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the
Structure of Ec+Ec (Leading Ec-Focused), PDB code: 7mka:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 1 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
a:Zn1801
b:299.6
occ:0.95
|
N
|
a:CYS167
|
2.1
|
272.0
|
1.0
|
|
SG
|
a:CYS167
|
2.3
|
272.0
|
1.0
|
|
SG
|
a:CYS148
|
2.3
|
265.0
|
1.0
|
|
SG
|
a:CYS110
|
2.3
|
216.8
|
1.0
|
|
CB
|
a:CYS110
|
2.9
|
216.8
|
1.0
|
|
CA
|
a:CYS167
|
2.9
|
272.0
|
1.0
|
|
C
|
a:GLY166
|
3.1
|
299.1
|
1.0
|
|
CB
|
a:CYS167
|
3.1
|
272.0
|
1.0
|
|
O
|
a:CYS167
|
3.1
|
272.0
|
1.0
|
|
N
|
a:GLY166
|
3.3
|
299.1
|
1.0
|
|
CA
|
a:GLY166
|
3.3
|
299.1
|
1.0
|
|
C
|
a:CYS167
|
3.4
|
272.0
|
1.0
|
|
CB
|
a:CYS148
|
3.6
|
265.0
|
1.0
|
|
SG
|
a:CYS107
|
4.1
|
213.7
|
1.0
|
|
O
|
a:GLY166
|
4.2
|
299.1
|
1.0
|
|
C
|
a:GLY165
|
4.3
|
340.9
|
1.0
|
|
CA
|
a:CYS110
|
4.4
|
216.8
|
1.0
|
|
O
|
a:GLU149
|
4.6
|
289.9
|
1.0
|
|
CB
|
a:LYS112
|
4.7
|
222.1
|
1.0
|
|
N
|
a:GLY168
|
4.7
|
247.6
|
1.0
|
|
CB
|
a:CYS107
|
4.7
|
213.7
|
1.0
|
|
CA
|
a:GLY165
|
4.8
|
340.9
|
1.0
|
|
N
|
a:CYS110
|
4.8
|
216.8
|
1.0
|
|
CG
|
a:LYS112
|
4.9
|
222.1
|
1.0
|
|
CA
|
a:CYS148
|
5.0
|
265.0
|
1.0
|
|
Zinc binding site 2 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 2 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
a:Zn1802
b:245.3
occ:1.00
|
O
|
a:CYS67
|
1.9
|
242.8
|
1.0
|
|
SG
|
a:CYS67
|
2.3
|
242.8
|
1.0
|
|
SG
|
a:CYS70
|
2.3
|
263.0
|
1.0
|
|
NE2
|
a:HIS80
|
2.3
|
221.0
|
1.0
|
|
CE1
|
a:HIS80
|
2.3
|
221.0
|
1.0
|
|
C
|
a:CYS67
|
3.0
|
242.8
|
1.0
|
|
CD1
|
b:ILE1172
|
3.1
|
560.3
|
1.0
|
|
CB
|
a:CYS70
|
3.1
|
263.0
|
1.0
|
|
CB
|
a:CYS67
|
3.3
|
242.8
|
1.0
|
|
ND1
|
a:HIS80
|
3.6
|
221.0
|
1.0
|
|
CD2
|
a:HIS80
|
3.6
|
221.0
|
1.0
|
|
CA
|
a:CYS67
|
3.7
|
242.8
|
1.0
|
|
OE1
|
a:GLN68
|
3.8
|
245.8
|
1.0
|
|
N
|
a:GLN68
|
4.1
|
245.8
|
1.0
|
|
OE1
|
a:GLU72
|
4.1
|
263.6
|
1.0
|
|
CG
|
a:HIS80
|
4.2
|
221.0
|
1.0
|
|
O
|
a:GLN68
|
4.2
|
245.8
|
1.0
|
|
CB
|
a:GLN68
|
4.2
|
245.8
|
1.0
|
|
CA
|
a:CYS70
|
4.3
|
263.0
|
1.0
|
|
N
|
a:CYS70
|
4.3
|
263.0
|
1.0
|
|
CG1
|
b:ILE1172
|
4.4
|
560.3
|
1.0
|
|
CA
|
a:GLN68
|
4.5
|
245.8
|
1.0
|
|
C
|
a:GLN68
|
4.5
|
245.8
|
1.0
|
|
SG
|
a:CYS77
|
4.8
|
231.6
|
1.0
|
|
CD
|
a:GLN68
|
4.8
|
245.8
|
1.0
|
|
O
|
a:LYS66
|
4.9
|
243.2
|
1.0
|
|
Zinc binding site 3 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 3 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
b:Zn1301
b:866.8
occ:1.00
|
CB
|
b:CYS1185
|
2.1
|
908.1
|
1.0
|
|
SG
|
b:CYS1166
|
2.3
|
731.0
|
1.0
|
|
SG
|
b:CYS1185
|
2.3
|
908.1
|
1.0
|
|
SG
|
b:CYS1182
|
2.3
|
879.9
|
1.0
|
|
SG
|
b:CYS1163
|
2.3
|
771.8
|
1.0
|
|
CB
|
b:CYS1163
|
3.1
|
771.8
|
1.0
|
|
CB
|
b:CYS1166
|
3.3
|
731.0
|
1.0
|
|
CB
|
b:CYS1182
|
3.4
|
879.9
|
1.0
|
|
N
|
b:CYS1166
|
3.5
|
731.0
|
1.0
|
|
CA
|
b:CYS1185
|
3.6
|
908.1
|
1.0
|
|
CA
|
b:CYS1166
|
3.9
|
731.0
|
1.0
|
|
N
|
b:CYS1185
|
4.0
|
908.1
|
1.0
|
|
ND2
|
b:ASN1187
|
4.1
|
901.9
|
1.0
|
|
OD1
|
b:ASN1187
|
4.1
|
901.9
|
1.0
|
|
C
|
b:CYS1185
|
4.4
|
908.1
|
1.0
|
|
O
|
b:CYS1182
|
4.4
|
879.9
|
1.0
|
|
CG
|
b:ASN1187
|
4.5
|
901.9
|
1.0
|
|
CA
|
b:CYS1163
|
4.5
|
771.8
|
1.0
|
|
CG2
|
b:ILE1165
|
4.6
|
823.6
|
1.0
|
|
C
|
b:ILE1165
|
4.6
|
823.6
|
1.0
|
|
CB
|
b:ILE1165
|
4.6
|
823.6
|
1.0
|
|
CA
|
b:CYS1182
|
4.7
|
879.9
|
1.0
|
|
O
|
b:CYS1185
|
4.7
|
908.1
|
1.0
|
|
C
|
b:CYS1182
|
4.8
|
879.9
|
1.0
|
|
O
|
b:CYS1163
|
4.9
|
771.8
|
1.0
|
|
O
|
b:LYS1183
|
4.9
|
896.6
|
1.0
|
|
C
|
b:CYS1163
|
5.0
|
771.8
|
1.0
|
|
Zinc binding site 4 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 4 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
c:Zn401
b:681.1
occ:1.00
|
SG
|
c:CYS88
|
2.3
|
684.2
|
1.0
|
|
SG
|
c:CYS95
|
2.3
|
603.6
|
1.0
|
|
SG
|
c:CYS92
|
2.3
|
633.5
|
1.0
|
|
SG
|
c:CYS86
|
2.3
|
652.9
|
1.0
|
|
CB
|
c:CYS88
|
2.9
|
684.2
|
1.0
|
|
CB
|
c:CYS95
|
3.2
|
603.6
|
1.0
|
|
CB
|
c:CYS86
|
3.3
|
652.9
|
1.0
|
|
CB
|
c:CYS92
|
3.4
|
633.5
|
1.0
|
|
N
|
c:CYS92
|
3.4
|
633.5
|
1.0
|
|
N
|
c:CYS95
|
3.8
|
603.6
|
1.0
|
|
CA
|
c:CYS92
|
3.9
|
633.5
|
1.0
|
|
O
|
c:CYS92
|
4.0
|
633.5
|
1.0
|
|
CA
|
c:CYS88
|
4.1
|
684.2
|
1.0
|
|
CA
|
c:CYS95
|
4.1
|
603.6
|
1.0
|
|
C
|
c:CYS92
|
4.1
|
633.5
|
1.0
|
|
N
|
c:CYS88
|
4.1
|
684.2
|
1.0
|
|
C
|
c:LYS94
|
4.4
|
609.7
|
1.0
|
|
C
|
c:HIS91
|
4.5
|
638.4
|
1.0
|
|
CB
|
c:LYS94
|
4.5
|
609.7
|
1.0
|
|
CA
|
c:CYS86
|
4.6
|
652.9
|
1.0
|
|
N
|
c:LYS94
|
4.7
|
609.7
|
1.0
|
|
CA
|
c:HIS91
|
4.7
|
638.4
|
1.0
|
|
CA
|
c:LYS94
|
4.7
|
609.7
|
1.0
|
|
C
|
c:CYS88
|
4.9
|
684.2
|
1.0
|
|
C
|
c:CYS86
|
4.9
|
652.9
|
1.0
|
|
C
|
c:CYS95
|
5.0
|
603.6
|
1.0
|
|
CE
|
c:LYS94
|
5.0
|
609.7
|
1.0
|
|
Zinc binding site 5 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 5 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
i:Zn201
b:670.6
occ:1.00
|
SG
|
i:CYS32
|
2.3
|
615.9
|
1.0
|
|
SG
|
i:CYS29
|
2.3
|
592.8
|
1.0
|
|
SG
|
i:CYS7
|
2.3
|
606.3
|
1.0
|
|
SG
|
i:CYS10
|
2.3
|
604.8
|
1.0
|
|
OG1
|
i:THR31
|
2.7
|
585.3
|
1.0
|
|
CB
|
i:CYS7
|
3.1
|
606.3
|
1.0
|
|
CB
|
i:CYS29
|
3.5
|
592.8
|
1.0
|
|
CB
|
i:CYS32
|
3.7
|
615.9
|
1.0
|
|
N
|
i:CYS32
|
3.7
|
615.9
|
1.0
|
|
N
|
i:CYS10
|
3.9
|
604.8
|
1.0
|
|
CB
|
i:CYS10
|
3.9
|
604.8
|
1.0
|
|
O
|
i:CYS10
|
3.9
|
604.8
|
1.0
|
|
CB
|
i:ASP9
|
4.0
|
631.7
|
1.0
|
|
CB
|
i:THR31
|
4.1
|
585.3
|
1.0
|
|
CA
|
i:CYS32
|
4.2
|
615.9
|
1.0
|
|
CA
|
i:CYS10
|
4.3
|
604.8
|
1.0
|
|
O
|
i:CYS32
|
4.5
|
615.9
|
1.0
|
|
CA
|
i:CYS7
|
4.5
|
606.3
|
1.0
|
|
C
|
i:CYS32
|
4.5
|
615.9
|
1.0
|
|
CB
|
i:TYR34
|
4.6
|
626.7
|
1.0
|
|
C
|
i:ASP9
|
4.6
|
631.7
|
1.0
|
|
C
|
i:CYS10
|
4.6
|
604.8
|
1.0
|
|
C
|
i:THR31
|
4.7
|
585.3
|
1.0
|
|
OD2
|
i:ASP9
|
4.7
|
631.7
|
1.0
|
|
CA
|
i:ASP9
|
4.7
|
631.7
|
1.0
|
|
N
|
i:ASP9
|
4.8
|
631.7
|
1.0
|
|
CA
|
i:THR31
|
4.8
|
585.3
|
1.0
|
|
CG2
|
i:THR31
|
4.9
|
585.3
|
1.0
|
|
CG
|
i:ASP9
|
4.9
|
631.7
|
1.0
|
|
CA
|
i:CYS29
|
4.9
|
592.8
|
1.0
|
|
C
|
i:CYS7
|
4.9
|
606.3
|
1.0
|
|
N
|
i:THR31
|
5.0
|
585.3
|
1.0
|
|
Zinc binding site 6 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 6 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
i:Zn202
b:1000.0
occ:1.00
|
SG
|
i:CYS78
|
2.3
|
1000.0
|
1.0
|
|
SG
|
i:CYS75
|
2.3
|
1000.0
|
1.0
|
|
SG
|
i:CYS106
|
2.3
|
1000.0
|
1.0
|
|
SG
|
i:CYS103
|
2.3
|
1000.0
|
1.0
|
|
CB
|
i:CYS106
|
2.7
|
1000.0
|
1.0
|
|
CB
|
i:CYS103
|
2.7
|
1000.0
|
1.0
|
|
OG
|
i:SER105
|
2.9
|
1000.0
|
1.0
|
|
CB
|
i:CYS75
|
3.1
|
1000.0
|
1.0
|
|
N
|
i:CYS106
|
3.2
|
1000.0
|
1.0
|
|
CA
|
i:CYS106
|
3.5
|
1000.0
|
1.0
|
|
OG
|
i:SER80
|
3.7
|
1000.0
|
1.0
|
|
CB
|
i:CYS78
|
3.9
|
1000.0
|
1.0
|
|
CB
|
i:SER80
|
4.1
|
1000.0
|
1.0
|
|
CA
|
i:CYS103
|
4.2
|
1000.0
|
1.0
|
|
CB
|
i:SER105
|
4.2
|
1000.0
|
1.0
|
|
C
|
i:SER105
|
4.3
|
1000.0
|
1.0
|
|
N
|
i:SER80
|
4.4
|
1000.0
|
1.0
|
|
N
|
i:HIS79
|
4.5
|
1000.0
|
1.0
|
|
CA
|
i:CYS75
|
4.5
|
1000.0
|
1.0
|
|
C
|
i:CYS106
|
4.5
|
1000.0
|
1.0
|
|
CA
|
i:CYS78
|
4.5
|
1000.0
|
1.0
|
|
N
|
i:CYS78
|
4.5
|
1000.0
|
1.0
|
|
C
|
i:CYS78
|
4.6
|
1000.0
|
1.0
|
|
C
|
i:CYS103
|
4.6
|
1000.0
|
1.0
|
|
O
|
i:CYS103
|
4.6
|
1000.0
|
1.0
|
|
CA
|
i:SER105
|
4.7
|
1000.0
|
1.0
|
|
N
|
i:SER105
|
4.7
|
1000.0
|
1.0
|
|
CA
|
i:SER80
|
4.8
|
1000.0
|
1.0
|
|
N
|
i:SER107
|
4.8
|
1000.0
|
1.0
|
|
N
|
i:CYS103
|
5.0
|
1000.0
|
1.0
|
|
Zinc binding site 7 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 7 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
j:Zn101
b:541.1
occ:1.00
|
SG
|
j:CYS10
|
2.3
|
474.0
|
1.0
|
|
SG
|
j:CYS46
|
2.3
|
497.4
|
1.0
|
|
SG
|
j:CYS45
|
2.3
|
511.5
|
1.0
|
|
SG
|
j:CYS7
|
2.3
|
416.8
|
1.0
|
|
N
|
j:CYS46
|
2.6
|
497.4
|
1.0
|
|
CB
|
j:CYS7
|
2.9
|
416.8
|
1.0
|
|
CA
|
j:CYS46
|
3.0
|
497.4
|
1.0
|
|
CB
|
j:CYS10
|
3.1
|
474.0
|
1.0
|
|
OG
|
j:SER9
|
3.1
|
398.2
|
1.0
|
|
CB
|
j:CYS46
|
3.2
|
497.4
|
1.0
|
|
C
|
j:CYS45
|
3.2
|
511.5
|
1.0
|
|
CB
|
j:CYS45
|
3.4
|
511.5
|
1.0
|
|
N
|
j:CYS10
|
3.6
|
474.0
|
1.0
|
|
O
|
j:CYS45
|
3.7
|
511.5
|
1.0
|
|
CA
|
j:CYS10
|
3.9
|
474.0
|
1.0
|
|
CA
|
j:CYS45
|
3.9
|
511.5
|
1.0
|
|
CA
|
j:CYS7
|
4.4
|
416.8
|
1.0
|
|
CB
|
j:SER9
|
4.4
|
398.2
|
1.0
|
|
C
|
j:CYS46
|
4.4
|
497.4
|
1.0
|
|
N
|
j:GLY11
|
4.5
|
476.2
|
1.0
|
|
NH2
|
j:ARG43
|
4.7
|
547.8
|
1.0
|
|
C
|
j:SER9
|
4.7
|
398.2
|
1.0
|
|
C
|
j:CYS10
|
4.8
|
474.0
|
1.0
|
|
C
|
j:CYS7
|
4.8
|
416.8
|
1.0
|
|
N
|
j:CYS45
|
4.8
|
511.5
|
1.0
|
|
NE
|
j:ARG43
|
4.9
|
547.8
|
1.0
|
|
O
|
j:CYS7
|
4.9
|
416.8
|
1.0
|
|
N
|
j:LYS12
|
5.0
|
488.6
|
1.0
|
|
Zinc binding site 8 out
of 8 in 7mka
Go back to
Zinc Binding Sites List in 7mka
Zinc binding site 8 out
of 8 in the Structure of Ec+Ec (Leading Ec-Focused)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Structure of Ec+Ec (Leading Ec-Focused) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
l:Zn101
b:319.1
occ:1.00
|
SG
|
l:CYS34
|
2.3
|
331.7
|
1.0
|
|
SG
|
l:CYS31
|
2.3
|
283.4
|
1.0
|
|
SG
|
l:CYS48
|
2.3
|
280.2
|
1.0
|
|
SG
|
l:CYS51
|
2.3
|
298.7
|
1.0
|
|
CB
|
l:CYS48
|
2.9
|
280.2
|
1.0
|
|
CB
|
l:CYS51
|
3.7
|
298.7
|
1.0
|
|
N
|
l:CYS51
|
3.7
|
298.7
|
1.0
|
|
CB
|
l:CYS34
|
4.0
|
331.7
|
1.0
|
|
CB
|
l:HIS53
|
4.1
|
261.3
|
1.0
|
|
CB
|
l:CYS31
|
4.1
|
283.4
|
1.0
|
|
CA
|
l:CYS51
|
4.1
|
298.7
|
1.0
|
|
O
|
l:CYS51
|
4.2
|
298.7
|
1.0
|
|
ND1
|
l:HIS53
|
4.3
|
261.3
|
1.0
|
|
CB
|
l:ASP50
|
4.3
|
315.8
|
1.0
|
|
C
|
l:CYS51
|
4.4
|
298.7
|
1.0
|
|
O
|
l:ALA32
|
4.4
|
295.5
|
1.0
|
|
CA
|
l:CYS48
|
4.4
|
280.2
|
1.0
|
|
CG
|
l:HIS53
|
4.5
|
261.3
|
1.0
|
|
OD2
|
l:ASP50
|
4.6
|
315.8
|
1.0
|
|
C
|
l:ASP50
|
4.7
|
315.8
|
1.0
|
|
N
|
l:HIS53
|
4.8
|
261.3
|
1.0
|
|
O
|
l:CYS34
|
4.8
|
331.7
|
1.0
|
|
N
|
l:ASP50
|
4.9
|
315.8
|
1.0
|
|
CA
|
l:ASP50
|
4.9
|
315.8
|
1.0
|
|
C
|
l:CYS31
|
5.0
|
283.4
|
1.0
|
|
CG
|
l:ASP50
|
5.0
|
315.8
|
1.0
|
|
Reference:
C.Yang,
K.Murakami.
Structure of Ec+Ec (Leading Ec-Focused) To Be Published.
Page generated: Sat Apr 8 00:34:47 2023
|
