Zinc in PDB 6rqt: Rna Polymerase I-Twh-RRN3-Dna
Enzymatic activity of Rna Polymerase I-Twh-RRN3-Dna
All present enzymatic activity of Rna Polymerase I-Twh-RRN3-Dna:
2.7.7.6;
Zinc Binding Sites:
The binding sites of Zinc atom in the Rna Polymerase I-Twh-RRN3-Dna
(pdb code 6rqt). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the
Rna Polymerase I-Twh-RRN3-Dna, PDB code: 6rqt:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
Zinc binding site 1 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 1 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1701
b:0.6
occ:1.00
|
SG
|
A:CYS105
|
2.4
|
0.7
|
1.0
|
SG
|
A:CYS236
|
2.4
|
0.3
|
1.0
|
SG
|
A:CYS102
|
2.5
|
0.2
|
1.0
|
SG
|
A:CYS233
|
2.6
|
0.8
|
1.0
|
CB
|
A:CYS102
|
2.8
|
0.2
|
1.0
|
CB
|
A:CYS233
|
3.0
|
0.8
|
1.0
|
CB
|
A:CYS105
|
3.5
|
0.7
|
1.0
|
O
|
A:CYS236
|
3.9
|
0.3
|
1.0
|
N
|
A:CYS105
|
4.0
|
0.7
|
1.0
|
CB
|
A:CYS236
|
4.0
|
0.3
|
1.0
|
N
|
A:CYS236
|
4.1
|
0.3
|
1.0
|
CA
|
A:CYS102
|
4.3
|
0.2
|
1.0
|
CA
|
A:CYS105
|
4.4
|
0.7
|
1.0
|
CA
|
A:CYS233
|
4.5
|
0.8
|
1.0
|
CA
|
A:CYS236
|
4.5
|
0.3
|
1.0
|
CB
|
A:ASN235
|
4.5
|
1.0
|
1.0
|
C
|
A:CYS236
|
4.7
|
0.3
|
1.0
|
CB
|
A:PHE104
|
4.7
|
0.9
|
1.0
|
C
|
A:ASN235
|
4.8
|
1.0
|
1.0
|
C
|
A:CYS102
|
4.9
|
0.2
|
1.0
|
C
|
A:PHE104
|
4.9
|
0.9
|
1.0
|
|
Zinc binding site 2 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 2 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1702
b:0.2
occ:1.00
|
OG1
|
A:THR64
|
2.1
|
0.2
|
1.0
|
NE2
|
A:HIS75
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS62
|
2.5
|
0.5
|
1.0
|
CD2
|
A:HIS75
|
2.8
|
0.0
|
1.0
|
CB
|
A:THR64
|
3.3
|
0.2
|
1.0
|
N
|
A:CYS65
|
3.3
|
0.9
|
1.0
|
CB
|
A:CYS65
|
3.4
|
0.9
|
1.0
|
CE1
|
A:HIS75
|
3.5
|
0.0
|
1.0
|
SG
|
A:CYS65
|
3.7
|
0.9
|
1.0
|
SG
|
A:CYS72
|
3.7
|
0.9
|
1.0
|
C
|
A:THR64
|
3.8
|
0.2
|
1.0
|
CA
|
A:CYS65
|
3.9
|
0.9
|
1.0
|
CA
|
A:THR64
|
3.9
|
0.2
|
1.0
|
CB
|
A:CYS62
|
4.1
|
0.5
|
1.0
|
CG
|
A:HIS75
|
4.1
|
0.0
|
1.0
|
N
|
A:THR64
|
4.3
|
0.2
|
1.0
|
ND1
|
A:HIS75
|
4.4
|
0.0
|
1.0
|
CG2
|
A:THR64
|
4.5
|
0.2
|
1.0
|
O
|
A:THR64
|
4.6
|
0.2
|
1.0
|
CB
|
A:CYS72
|
4.8
|
0.9
|
1.0
|
O
|
A:GLY55
|
4.8
|
0.9
|
1.0
|
CD
|
A:PRO73
|
4.9
|
0.8
|
1.0
|
CA
|
A:GLY55
|
5.0
|
0.9
|
1.0
|
N
|
A:GLY74
|
5.0
|
0.1
|
1.0
|
|
Zinc binding site 3 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 3 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn1301
b:0.2
occ:1.00
|
SG
|
B:CYS1131
|
2.5
|
0.4
|
1.0
|
SG
|
B:CYS1104
|
2.5
|
0.3
|
1.0
|
SG
|
B:CYS1107
|
2.5
|
96.2
|
1.0
|
SG
|
B:CYS1128
|
2.6
|
0.1
|
1.0
|
CB
|
B:CYS1131
|
3.2
|
0.4
|
1.0
|
N
|
B:CYS1131
|
3.2
|
0.4
|
1.0
|
CB
|
B:CYS1104
|
3.3
|
0.3
|
1.0
|
CB
|
B:CYS1107
|
3.6
|
96.2
|
1.0
|
CB
|
B:CYS1128
|
3.7
|
0.1
|
1.0
|
CA
|
B:CYS1131
|
3.8
|
0.4
|
1.0
|
CB
|
B:ARG1130
|
3.8
|
0.1
|
1.0
|
C
|
B:ARG1130
|
4.1
|
0.1
|
1.0
|
N
|
B:ARG1130
|
4.2
|
0.1
|
1.0
|
CA
|
B:ARG1130
|
4.3
|
0.1
|
1.0
|
N
|
B:CYS1107
|
4.5
|
96.2
|
1.0
|
CA
|
B:CYS1107
|
4.7
|
96.2
|
1.0
|
CA
|
B:CYS1104
|
4.7
|
0.3
|
1.0
|
CG
|
B:ARG1130
|
4.8
|
0.1
|
1.0
|
CD
|
B:ARG1130
|
5.0
|
0.1
|
1.0
|
|
Zinc binding site 4 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 4 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn201
b:0.6
occ:1.00
|
SG
|
I:CYS33
|
2.5
|
0.4
|
1.0
|
CB
|
I:CYS30
|
2.5
|
0.2
|
1.0
|
CB
|
I:CYS13
|
2.5
|
0.0
|
1.0
|
CB
|
I:ALA35
|
2.5
|
0.5
|
1.0
|
O
|
I:CYS33
|
3.0
|
0.4
|
1.0
|
SG
|
I:CYS13
|
3.1
|
0.0
|
1.0
|
SG
|
I:CYS30
|
3.2
|
0.2
|
1.0
|
CA
|
I:ALA35
|
3.6
|
0.5
|
1.0
|
CA
|
I:CYS13
|
3.7
|
0.0
|
1.0
|
C
|
I:CYS33
|
3.8
|
0.4
|
1.0
|
O
|
I:ALA35
|
3.8
|
0.5
|
1.0
|
N
|
I:ALA35
|
3.8
|
0.5
|
1.0
|
CB
|
I:CYS33
|
3.9
|
0.4
|
1.0
|
CA
|
I:CYS30
|
3.9
|
0.2
|
1.0
|
N
|
I:CYS13
|
4.0
|
0.0
|
1.0
|
C
|
I:ALA35
|
4.1
|
0.5
|
1.0
|
CA
|
I:CYS33
|
4.2
|
0.4
|
1.0
|
N
|
I:CYS30
|
4.3
|
0.2
|
1.0
|
N
|
I:CYS33
|
4.3
|
0.4
|
1.0
|
N
|
I:LYS34
|
4.8
|
1.0
|
1.0
|
C
|
I:LYS34
|
4.9
|
1.0
|
1.0
|
C
|
I:CYS30
|
4.9
|
0.2
|
1.0
|
C
|
I:CYS13
|
5.0
|
0.0
|
1.0
|
|
Zinc binding site 5 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 5 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Zn101
b:0.0
occ:1.00
|
N
|
J:CYS46
|
2.2
|
91.8
|
1.0
|
SG
|
J:CYS10
|
2.4
|
86.1
|
1.0
|
SG
|
J:CYS46
|
2.5
|
91.8
|
1.0
|
CB
|
J:CYS46
|
2.9
|
91.8
|
1.0
|
C
|
J:CYS45
|
2.9
|
0.8
|
1.0
|
CA
|
J:CYS46
|
2.9
|
91.8
|
1.0
|
CB
|
J:ARG43
|
3.1
|
99.9
|
1.0
|
N
|
J:CYS45
|
3.3
|
0.8
|
1.0
|
CB
|
J:CYS10
|
3.5
|
86.1
|
1.0
|
CA
|
J:CYS45
|
3.5
|
0.8
|
1.0
|
NE
|
J:ARG43
|
3.6
|
99.9
|
1.0
|
CB
|
J:CYS45
|
3.8
|
0.8
|
1.0
|
O
|
J:CYS45
|
3.8
|
0.8
|
1.0
|
C
|
J:ARG43
|
4.0
|
99.9
|
1.0
|
N
|
J:TYR44
|
4.0
|
93.6
|
1.0
|
CA
|
J:ARG43
|
4.1
|
99.9
|
1.0
|
CD
|
J:ARG43
|
4.1
|
99.9
|
1.0
|
CG
|
J:ARG43
|
4.1
|
99.9
|
1.0
|
C
|
J:TYR44
|
4.2
|
93.6
|
1.0
|
C
|
J:CYS46
|
4.3
|
91.8
|
1.0
|
CZ
|
J:ARG43
|
4.5
|
99.9
|
1.0
|
O
|
J:ARG43
|
4.5
|
99.9
|
1.0
|
CA
|
J:TYR44
|
4.6
|
93.6
|
1.0
|
N
|
J:ARG43
|
4.6
|
99.9
|
1.0
|
N
|
J:ARG47
|
4.6
|
86.6
|
1.0
|
CA
|
J:CYS10
|
4.7
|
86.1
|
1.0
|
NH2
|
J:ARG43
|
4.7
|
99.9
|
1.0
|
|
Zinc binding site 6 out
of 6 in 6rqt
Go back to
Zinc Binding Sites List in 6rqt
Zinc binding site 6 out
of 6 in the Rna Polymerase I-Twh-RRN3-Dna
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Rna Polymerase I-Twh-RRN3-Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn101
b:0.5
occ:1.00
|
OD1
|
L:ASP50
|
2.2
|
0.9
|
1.0
|
SG
|
L:CYS48
|
2.5
|
0.8
|
1.0
|
SG
|
L:CYS34
|
2.5
|
0.3
|
1.0
|
CG
|
L:ASP50
|
3.0
|
0.9
|
1.0
|
OD2
|
L:ASP50
|
3.2
|
0.9
|
1.0
|
CG
|
L:GLU33
|
3.3
|
0.8
|
1.0
|
CB
|
L:GLU33
|
3.3
|
0.8
|
1.0
|
CB
|
L:CYS34
|
3.7
|
0.3
|
1.0
|
N
|
L:CYS34
|
3.8
|
0.3
|
1.0
|
SG
|
L:CYS51
|
3.8
|
0.0
|
1.0
|
OG
|
L:SER36
|
3.8
|
0.2
|
1.0
|
CB
|
L:CYS48
|
3.8
|
0.8
|
1.0
|
CB
|
L:SER36
|
4.1
|
0.2
|
1.0
|
CA
|
L:CYS34
|
4.3
|
0.3
|
1.0
|
C
|
L:GLU33
|
4.4
|
0.8
|
1.0
|
CB
|
L:ASP50
|
4.4
|
0.9
|
1.0
|
CA
|
L:GLU33
|
4.4
|
0.8
|
1.0
|
N
|
L:ASP50
|
4.5
|
0.9
|
1.0
|
N
|
L:CYS51
|
4.6
|
0.0
|
1.0
|
CD
|
L:GLU33
|
4.8
|
0.8
|
1.0
|
SG
|
L:CYS31
|
4.8
|
0.5
|
1.0
|
CA
|
L:ASP50
|
4.9
|
0.9
|
1.0
|
C
|
L:CYS34
|
5.0
|
0.3
|
1.0
|
|
Reference:
C.W.Mueller,
Y.Sadian,
L.Tafur.
Rna Polymerase I-Twh-RRN3-Dna To Be Published.
Page generated: Tue Oct 29 06:42:17 2024
|