Fluorine in PDB 7nkx: Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure

Enzymatic activity of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure

All present enzymatic activity of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure:
2.7.7.6;

Other elements in 7nkx:

The structure of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure also contains other interesting chemical elements:

Zinc (Zn) 8 atoms
Magnesium (Mg) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure (pdb code 7nkx). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure, PDB code: 7nkx:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 7nkx

Go back to Fluorine Binding Sites List in 7nkx
Fluorine binding site 1 out of 3 in the Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
W:F1502

b:104.1
occ:1.00
F1 W:BEF1502 0.0 104.1 1.0
BE W:BEF1502 1.5 104.1 1.0
O2B W:ADP1501 2.2 97.8 1.0
NH1 W:ARG804 2.3 101.3 1.0
NH2 W:ARG804 2.4 101.3 1.0
F3 W:BEF1502 2.5 104.1 1.0
NH1 W:ARG807 2.5 99.4 1.0
F2 W:BEF1502 2.6 104.1 1.0
CZ W:ARG804 2.6 101.3 1.0
O2A W:ADP1501 3.0 97.8 1.0
CZ W:ARG807 3.3 99.4 1.0
NE W:ARG807 3.4 99.4 1.0
PB W:ADP1501 3.7 97.8 1.0
CA W:GLY777 3.8 100.0 1.0
C W:GLY777 3.8 100.0 1.0
NE W:ARG804 3.9 101.3 1.0
O W:GLY777 3.9 100.0 1.0
O W:ILE778 3.9 99.0 1.0
O W:LEU776 4.0 101.8 1.0
PA W:ADP1501 4.3 97.8 1.0
O3A W:ADP1501 4.3 97.8 1.0
O3B W:ADP1501 4.4 97.8 1.0
NH2 W:ARG807 4.4 99.4 1.0
N W:ILE778 4.4 99.0 1.0
N W:GLY777 4.6 100.0 1.0
N W:GLY404 4.6 101.5 1.0
C W:ILE778 4.7 99.0 1.0
O1B W:ADP1501 4.7 97.8 1.0
C W:LEU776 4.7 101.8 1.0
OE1 W:GLN800 4.7 103.8 1.0
CB W:MET403 4.7 102.4 1.0
CD W:ARG807 4.7 99.4 1.0
OE1 W:GLU514 4.7 101.3 1.0
CD W:ARG804 4.8 101.3 1.0
C5' W:ADP1501 4.9 97.8 1.0

Fluorine binding site 2 out of 3 in 7nkx

Go back to Fluorine Binding Sites List in 7nkx
Fluorine binding site 2 out of 3 in the Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
W:F1502

b:104.1
occ:1.00
F2 W:BEF1502 0.0 104.1 1.0
BE W:BEF1502 1.6 104.1 1.0
O W:LEU776 2.1 101.8 1.0
OE1 W:GLU514 2.3 101.3 1.0
NH2 W:ARG804 2.4 101.3 1.0
F3 W:BEF1502 2.5 104.1 1.0
F1 W:BEF1502 2.6 104.1 1.0
CZ W:ARG804 3.1 101.3 1.0
NH1 W:ARG804 3.1 101.3 1.0
C W:LEU776 3.2 101.8 1.0
OE1 W:GLN800 3.3 103.8 1.0
CD W:GLU514 3.3 101.3 1.0
O2B W:ADP1501 3.4 97.8 1.0
NE2 W:GLN800 3.4 103.8 1.0
CA W:GLY777 3.4 100.0 1.0
CD W:GLN800 3.7 103.8 1.0
N W:GLY777 3.7 100.0 1.0
OE2 W:GLU514 4.1 101.3 1.0
CB W:MET403 4.1 102.4 1.0
CG W:GLU514 4.2 101.3 1.0
NE W:ARG804 4.3 101.3 1.0
C W:GLY777 4.4 100.0 1.0
CA W:LEU776 4.5 101.8 1.0
PB W:ADP1501 4.7 97.8 1.0
O W:GLY777 4.8 100.0 1.0
O2A W:ADP1501 4.8 97.8 1.0
CA W:MET403 4.9 102.4 1.0
O1B W:ADP1501 4.9 97.8 1.0
NH1 W:ARG807 5.0 99.4 1.0

Fluorine binding site 3 out of 3 in 7nkx

Go back to Fluorine Binding Sites List in 7nkx
Fluorine binding site 3 out of 3 in the Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Rna Polymerase II-SPT4/5-Nucleosome-CHD1 Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
W:F1502

b:104.1
occ:1.00
F3 W:BEF1502 0.0 104.1 1.0
BE W:BEF1502 1.5 104.1 1.0
F2 W:BEF1502 2.5 104.1 1.0
F1 W:BEF1502 2.5 104.1 1.0
NH2 W:ARG804 2.9 101.3 1.0
O2B W:ADP1501 3.0 97.8 1.0
O2A W:ADP1501 3.0 97.8 1.0
CA W:MET403 3.1 102.4 1.0
CB W:MET403 3.1 102.4 1.0
N W:GLY404 3.2 101.5 1.0
C W:MET403 3.5 102.4 1.0
CD W:LYS407 3.9 102.1 1.0
OE1 W:GLU514 3.9 101.3 1.0
O3A W:ADP1501 3.9 97.8 1.0
PA W:ADP1501 3.9 97.8 1.0
CZ W:ARG804 4.0 101.3 1.0
PB W:ADP1501 4.1 97.8 1.0
NZ W:LYS407 4.2 102.1 1.0
CA W:GLY404 4.3 101.5 1.0
NH1 W:ARG804 4.3 101.3 1.0
CE W:LYS407 4.4 102.1 1.0
N W:MET403 4.4 102.4 1.0
O1A W:ADP1501 4.4 97.8 1.0
CG W:LYS407 4.4 102.1 1.0
O W:LEU776 4.6 101.8 1.0
NE W:ARG807 4.6 99.4 1.0
O W:MET403 4.6 102.4 1.0
OE1 W:GLN800 4.6 103.8 1.0
NH1 W:ARG807 4.6 99.4 1.0
NE2 W:GLN800 4.7 103.8 1.0
O1B W:ADP1501 4.8 97.8 1.0
CZ W:ARG807 5.0 99.4 1.0

Reference:

L.Farnung, M.Ochmann, M.Engeholm, P.Cramer. Structural Basis of Nucleosome Transcription Mediated By CHD1 and Fact. Nat.Struct.Mol.Biol. V. 28 382 2021.
ISSN: ESSN 1545-9985
PubMed: 33846633
DOI: 10.1038/S41594-021-00578-6
Page generated: Fri Sep 24 13:29:46 2021

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