Fluorine in PDB 7nvv: Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
Enzymatic activity of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
All present enzymatic activity of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3):
3.6.4.12;
Other elements in 7nvv:
The structure of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3) also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
(pdb code 7nvv). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3), PDB code: 7nvv:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 7nvv
Go back to
Fluorine Binding Sites List in 7nvv
Fluorine binding site 1 out
of 3 in the Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F903
b:18.4
occ:1.00
|
F1
|
7:BEF903
|
0.0
|
18.4
|
1.0
|
BE
|
7:BEF903
|
1.5
|
18.4
|
1.0
|
MG
|
7:MG902
|
2.0
|
14.2
|
1.0
|
F3
|
7:BEF903
|
2.6
|
18.4
|
1.0
|
F2
|
7:BEF903
|
2.6
|
18.4
|
1.0
|
O3B
|
7:ADP901
|
2.7
|
17.6
|
1.0
|
O2B
|
7:ADP901
|
2.9
|
17.6
|
1.0
|
PB
|
7:ADP901
|
3.3
|
17.6
|
1.0
|
OE2
|
7:GLU442
|
3.7
|
21.5
|
1.0
|
CA
|
7:SER614
|
3.9
|
21.7
|
1.0
|
NH2
|
7:ARG645
|
4.0
|
18.9
|
1.0
|
CE
|
7:LYS346
|
4.1
|
15.7
|
1.0
|
N
|
7:SER614
|
4.2
|
21.7
|
1.0
|
O2A
|
7:ADP901
|
4.4
|
17.6
|
1.0
|
O3A
|
7:ADP901
|
4.4
|
17.6
|
1.0
|
O1B
|
7:ADP901
|
4.5
|
17.6
|
1.0
|
OG
|
7:SER614
|
4.5
|
21.7
|
1.0
|
NZ
|
7:LYS346
|
4.6
|
15.7
|
1.0
|
OD2
|
7:ASP441
|
4.7
|
19.8
|
1.0
|
CB
|
7:SER614
|
4.7
|
21.7
|
1.0
|
NH1
|
7:ARG642
|
4.7
|
19.2
|
1.0
|
CD
|
7:GLU442
|
4.8
|
21.5
|
1.0
|
OD1
|
7:ASP441
|
4.8
|
19.8
|
1.0
|
NH2
|
7:ARG642
|
4.8
|
19.2
|
1.0
|
C
|
7:SER614
|
4.8
|
21.7
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 7nvv
Go back to
Fluorine Binding Sites List in 7nvv
Fluorine binding site 2 out
of 3 in the Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F903
b:18.4
occ:1.00
|
F2
|
7:BEF903
|
0.0
|
18.4
|
1.0
|
BE
|
7:BEF903
|
1.6
|
18.4
|
1.0
|
F3
|
7:BEF903
|
2.5
|
18.4
|
1.0
|
F1
|
7:BEF903
|
2.6
|
18.4
|
1.0
|
O3B
|
7:ADP901
|
2.7
|
17.6
|
1.0
|
NZ
|
7:LYS346
|
2.8
|
15.7
|
1.0
|
CE
|
7:LYS346
|
3.0
|
15.7
|
1.0
|
SG
|
7:CYS342
|
3.5
|
16.8
|
1.0
|
CA
|
7:CYS342
|
3.5
|
16.8
|
1.0
|
PB
|
7:ADP901
|
3.7
|
17.6
|
1.0
|
CB
|
7:CYS342
|
3.7
|
16.8
|
1.0
|
CB
|
7:ALA468
|
3.8
|
16.9
|
1.0
|
O2B
|
7:ADP901
|
4.0
|
17.6
|
1.0
|
O1B
|
7:ADP901
|
4.0
|
17.6
|
1.0
|
MG
|
7:MG902
|
4.2
|
14.2
|
1.0
|
NH2
|
7:ARG642
|
4.2
|
19.2
|
1.0
|
OE1
|
7:GLN638
|
4.3
|
20.4
|
1.0
|
N
|
7:GLY343
|
4.4
|
17.0
|
1.0
|
N
|
7:CYS342
|
4.4
|
16.8
|
1.0
|
CD
|
7:LYS346
|
4.5
|
15.7
|
1.0
|
C
|
7:CYS342
|
4.5
|
16.8
|
1.0
|
OE2
|
7:GLU442
|
4.7
|
21.5
|
1.0
|
N
|
7:ALA468
|
4.9
|
16.9
|
1.0
|
O
|
7:PRO341
|
4.9
|
16.6
|
1.0
|
NH2
|
7:ARG645
|
5.0
|
18.9
|
1.0
|
C
|
7:PRO341
|
5.0
|
16.6
|
1.0
|
CA
|
7:ALA468
|
5.0
|
16.9
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 7nvv
Go back to
Fluorine Binding Sites List in 7nvv
Fluorine binding site 3 out
of 3 in the Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3)
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Xpb-Containing Part of Tfiih in A Post-Translocated State (with Adp- BEF3) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F903
b:18.4
occ:1.00
|
F3
|
7:BEF903
|
0.0
|
18.4
|
1.0
|
BE
|
7:BEF903
|
1.5
|
18.4
|
1.0
|
NH2
|
7:ARG642
|
2.5
|
19.2
|
1.0
|
F2
|
7:BEF903
|
2.5
|
18.4
|
1.0
|
F1
|
7:BEF903
|
2.6
|
18.4
|
1.0
|
O3B
|
7:ADP901
|
2.6
|
17.6
|
1.0
|
NH1
|
7:ARG642
|
2.8
|
19.2
|
1.0
|
CZ
|
7:ARG642
|
3.1
|
19.2
|
1.0
|
NH2
|
7:ARG645
|
3.1
|
18.9
|
1.0
|
NH1
|
7:ARG645
|
3.2
|
18.9
|
1.0
|
CZ
|
7:ARG645
|
3.6
|
18.9
|
1.0
|
CB
|
7:CYS342
|
3.9
|
16.8
|
1.0
|
N
|
7:SER614
|
4.1
|
21.7
|
1.0
|
PB
|
7:ADP901
|
4.1
|
17.6
|
1.0
|
SG
|
7:CYS342
|
4.2
|
16.8
|
1.0
|
N
|
7:GLY343
|
4.2
|
17.0
|
1.0
|
CA
|
7:CYS342
|
4.2
|
16.8
|
1.0
|
CA
|
7:SER614
|
4.3
|
21.7
|
1.0
|
MG
|
7:MG902
|
4.4
|
14.2
|
1.0
|
NE
|
7:ARG642
|
4.4
|
19.2
|
1.0
|
O2B
|
7:ADP901
|
4.6
|
17.6
|
1.0
|
OE1
|
7:GLN638
|
4.6
|
20.4
|
1.0
|
C
|
7:CYS342
|
4.7
|
16.8
|
1.0
|
NE
|
7:ARG645
|
4.8
|
18.9
|
1.0
|
C
|
7:SER614
|
4.9
|
21.7
|
1.0
|
O
|
7:GLY641
|
4.9
|
18.1
|
1.0
|
O3A
|
7:ADP901
|
4.9
|
17.6
|
1.0
|
N
|
7:PHE615
|
5.0
|
21.2
|
1.0
|
OE2
|
7:GLU442
|
5.0
|
21.5
|
1.0
|
NZ
|
7:LYS346
|
5.0
|
15.7
|
1.0
|
|
Reference:
S.Aibara,
S.Schilbach,
P.Cramer.
Structures of Mammalian Rna Polymerase II Pre-Initiation Complexes. Nature 2021.
ISSN: ESSN 1476-4687
PubMed: 33902107
DOI: 10.1038/S41586-021-03554-8
Page generated: Fri Aug 2 10:14:50 2024
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