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Fluorine in PDB 8e70: Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part

Other elements in 8e70:

The structure of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part also contains other interesting chemical elements:

Magnesium (Mg) 6 atoms

Fluorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 18;

Binding sites:

The binding sites of Fluorine atom in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part (pdb code 8e70). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 18 binding sites of Fluorine where determined in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part, PDB code: 8e70:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 18 in 8e70

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Fluorine binding site 1 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
e:F1002

b:172.7
occ:1.00
 F1 e:BEF1002 0.0 172.7 1.0
BE e:BEF1002 1.5 164.8 1.0
F3 e:BEF1002 2.5 157.0 1.0
F2 e:BEF1002 2.6 177.2 1.0
O1B e:ADP1000 2.7 168.3 1.0
O f:GLY337 3.3 23.7 1.0
NZ e:LYS184 3.4 23.4 1.0
NH1 f:ARG366 3.4 25.5 1.0
NH2 f:ARG366 3.5 25.5 1.0
N e:LYS181 3.7 20.5 1.0
CB e:PRO180 3.8 23.0 1.0
CZ f:ARG366 3.9 25.5 1.0
CA e:PRO180 3.9 23.0 1.0
C f:GLY337 3.9 23.7 1.0
PB e:ADP1000 4.1 191.2 1.0
CA f:GLY337 4.1 23.7 1.0
MG e:MG1001 4.3 157.0 1.0
C e:PRO180 4.4 23.0 1.0
CE e:LYS184 4.4 23.4 1.0
O f:GLY339 4.7 23.8 1.0
O3B e:ADP1000 4.7 178.7 1.0
O2B e:ADP1000 4.7 188.5 1.0
CA e:LYS181 4.7 20.5 1.0
N f:THR338 4.9 22.9 1.0

Fluorine binding site 2 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 2 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
e:F1002

b:177.2
occ:1.00
 F2 e:BEF1002 0.0 177.2 1.0
BE e:BEF1002 1.6 164.8 1.0
NZ e:LYS184 1.8 23.4 1.0
CE e:LYS184 2.2 23.4 1.0
F3 e:BEF1002 2.5 157.0 1.0
F1 e:BEF1002 2.6 172.7 1.0
O1B e:ADP1000 2.9 168.3 1.0
CD1 e:LEU320 3.2 25.1 1.0
PB e:ADP1000 3.5 191.2 1.0
O3B e:ADP1000 3.5 178.7 1.0
CD e:LYS184 3.5 23.4 1.0
CA e:PRO180 3.6 23.0 1.0
MG e:MG1001 3.8 157.0 1.0
O2B e:ADP1000 3.9 188.5 1.0
CB e:PRO180 4.0 23.0 1.0
N e:PRO180 4.4 23.0 1.0
N e:LYS181 4.4 20.5 1.0
CG e:LEU320 4.5 25.1 1.0
CG e:LYS184 4.5 23.4 1.0
O f:GLY337 4.6 23.7 1.0
O e:PRO179 4.6 25.2 1.0
C e:PRO180 4.6 23.0 1.0
C e:PRO179 4.8 25.2 1.0
NH1 f:ARG366 4.9 25.5 1.0
CB e:LYS184 5.0 23.4 1.0
O3A e:ADP1000 5.0 230.8 1.0
NH2 f:ARG366 5.0 25.5 1.0

Fluorine binding site 3 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 3 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
e:F1002

b:157.0
occ:1.00
 F3 e:BEF1002 0.0 157.0 1.0
BE e:BEF1002 1.5 164.8 1.0
MG e:MG1001 1.9 157.0 1.0
O1B e:ADP1000 2.5 168.3 1.0
F2 e:BEF1002 2.5 177.2 1.0
F1 e:BEF1002 2.5 172.7 1.0
NZ e:LYS184 2.8 23.4 1.0
O2B e:ADP1000 3.0 188.5 1.0
CE e:LYS184 3.2 23.4 1.0
PB e:ADP1000 3.2 191.2 1.0
NH2 f:ARG366 3.8 25.5 1.0
O3B e:ADP1000 4.1 178.7 1.0
O1A e:ADP1000 4.3 210.7 1.0
O3A e:ADP1000 4.5 230.8 1.0
CD e:LYS184 4.6 23.4 1.0
OG1 e:THR185 4.7 21.8 1.0
O f:GLY337 4.7 23.7 1.0
CB e:LYS184 4.8 23.4 1.0
CZ f:ARG366 4.8 25.5 1.0
NH1 f:ARG366 4.9 25.5 1.0

Fluorine binding site 4 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 4 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
f:F1002

b:172.7
occ:1.00
 F1 f:BEF1002 0.0 172.7 1.0
BE f:BEF1002 1.5 164.8 1.0
F3 f:BEF1002 2.5 157.0 1.0
F2 f:BEF1002 2.6 177.2 1.0
O1B f:ADP1000 2.7 168.3 1.0
O a:GLY337 3.1 23.7 1.0
NZ f:LYS184 3.4 23.4 1.0
NH1 a:ARG366 3.7 25.5 1.0
N f:LYS181 3.7 20.5 1.0
C a:GLY337 3.7 23.7 1.0
NH2 a:ARG366 3.8 25.5 1.0
CB f:PRO180 3.8 23.0 1.0
CA f:PRO180 3.9 23.0 1.0
CA a:GLY337 4.0 23.7 1.0
PB f:ADP1000 4.1 191.2 1.0
CZ a:ARG366 4.1 25.5 1.0
MG f:MG1001 4.3 157.0 1.0
C f:PRO180 4.4 23.0 1.0
CE f:LYS184 4.4 23.4 1.0
O a:GLY339 4.7 23.8 1.0
O3B f:ADP1000 4.7 178.7 1.0
O2B f:ADP1000 4.7 188.5 1.0
CA f:LYS181 4.7 20.5 1.0
N a:THR338 4.7 22.9 1.0

Fluorine binding site 5 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 5 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
f:F1002

b:177.2
occ:1.00
 F2 f:BEF1002 0.0 177.2 1.0
BE f:BEF1002 1.6 164.8 1.0
NZ f:LYS184 1.8 23.4 1.0
CE f:LYS184 2.2 23.4 1.0
F3 f:BEF1002 2.5 157.0 1.0
F1 f:BEF1002 2.6 172.7 1.0
O1B f:ADP1000 2.9 168.3 1.0
CD1 f:LEU320 3.2 25.1 1.0
PB f:ADP1000 3.5 191.2 1.0
O3B f:ADP1000 3.5 178.7 1.0
CD f:LYS184 3.5 23.4 1.0
CA f:PRO180 3.6 23.0 1.0
MG f:MG1001 3.8 157.0 1.0
O2B f:ADP1000 3.9 188.5 1.0
CB f:PRO180 4.0 23.0 1.0
N f:PRO180 4.4 23.0 1.0
O a:GLY337 4.4 23.7 1.0
N f:LYS181 4.4 20.5 1.0
CG f:LEU320 4.5 25.1 1.0
CG f:LYS184 4.5 23.4 1.0
O f:PRO179 4.6 25.2 1.0
C f:PRO180 4.6 23.0 1.0
C f:PRO179 4.8 25.2 1.0
CB f:LYS184 5.0 23.4 1.0
O3A f:ADP1000 5.0 230.8 1.0

Fluorine binding site 6 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 6 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
f:F1002

b:157.0
occ:1.00
 F3 f:BEF1002 0.0 157.0 1.0
BE f:BEF1002 1.5 164.8 1.0
MG f:MG1001 1.8 157.0 1.0
O1B f:ADP1000 2.5 168.3 1.0
F2 f:BEF1002 2.5 177.2 1.0
F1 f:BEF1002 2.5 172.7 1.0
NZ f:LYS184 2.8 23.4 1.0
O2B f:ADP1000 3.0 188.5 1.0
CE f:LYS184 3.2 23.4 1.0
PB f:ADP1000 3.2 191.2 1.0
NH2 a:ARG366 4.0 25.5 1.0
O3B f:ADP1000 4.1 178.7 1.0
O1A f:ADP1000 4.3 210.7 1.0
O3A f:ADP1000 4.5 230.8 1.0
CD f:LYS184 4.6 23.4 1.0
O a:GLY337 4.6 23.7 1.0
OG1 f:THR185 4.6 21.8 1.0
CB f:LYS184 4.8 23.4 1.0
CZ a:ARG366 5.0 25.5 1.0
NH1 a:ARG366 5.0 25.5 1.0

Fluorine binding site 7 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 7 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
c:F1002

b:172.7
occ:1.00
 F1 c:BEF1002 0.0 172.7 1.0
BE c:BEF1002 1.5 164.8 1.0
F3 c:BEF1002 2.5 157.0 1.0
F2 c:BEF1002 2.6 177.2 1.0
O2B c:ADP1000 2.7 168.3 1.0
O d:GLY337 3.4 23.7 1.0
NZ c:LYS184 3.4 23.4 1.0
NH1 d:ARG366 3.4 25.5 1.0
NH2 d:ARG366 3.5 25.5 1.0
N c:LYS181 3.7 20.5 1.0
CB c:PRO180 3.8 23.0 1.0
CZ d:ARG366 3.9 25.5 1.0
CA c:PRO180 3.9 23.0 1.0
C d:GLY337 4.0 23.7 1.0
PB c:ADP1000 4.1 191.2 1.0
CA d:GLY337 4.2 23.7 1.0
MG c:MG1001 4.3 157.0 1.0
C c:PRO180 4.4 23.0 1.0
CE c:LYS184 4.4 23.4 1.0
O1B c:ADP1000 4.7 178.7 1.0
O3B c:ADP1000 4.7 188.5 1.0
CA c:LYS181 4.7 20.5 1.0
O d:GLY339 4.8 23.8 1.0
N d:THR338 5.0 22.9 1.0

Fluorine binding site 8 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 8 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
c:F1002

b:177.2
occ:1.00
 F2 c:BEF1002 0.0 177.2 1.0
BE c:BEF1002 1.6 164.8 1.0
NZ c:LYS184 1.8 23.4 1.0
CE c:LYS184 2.2 23.4 1.0
F3 c:BEF1002 2.5 157.0 1.0
F1 c:BEF1002 2.6 172.7 1.0
O2B c:ADP1000 2.9 168.3 1.0
CD1 c:LEU320 3.2 25.1 1.0
PB c:ADP1000 3.5 191.2 1.0
O1B c:ADP1000 3.5 178.7 1.0
CD c:LYS184 3.5 23.4 1.0
CA c:PRO180 3.6 23.0 1.0
MG c:MG1001 3.8 157.0 1.0
O3B c:ADP1000 3.9 188.5 1.0
CB c:PRO180 4.0 23.0 1.0
N c:PRO180 4.4 23.0 1.0
N c:LYS181 4.4 20.5 1.0
CG c:LEU320 4.5 25.1 1.0
CG c:LYS184 4.5 23.4 1.0
O c:PRO179 4.6 25.2 1.0
C c:PRO180 4.6 23.0 1.0
O d:GLY337 4.6 23.7 1.0
C c:PRO179 4.8 25.2 1.0
NH1 d:ARG366 5.0 25.5 1.0
CB c:LYS184 5.0 23.4 1.0
O3A c:ADP1000 5.0 230.8 1.0

Fluorine binding site 9 out of 18 in 8e70

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Fluorine binding site 9 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
c:F1002

b:157.0
occ:1.00
 F3 c:BEF1002 0.0 157.0 1.0
BE c:BEF1002 1.5 164.8 1.0
MG c:MG1001 1.8 157.0 1.0
O2B c:ADP1000 2.5 168.3 1.0
F2 c:BEF1002 2.5 177.2 1.0
F1 c:BEF1002 2.5 172.7 1.0
NZ c:LYS184 2.8 23.4 1.0
O3B c:ADP1000 3.0 188.5 1.0
CE c:LYS184 3.2 23.4 1.0
PB c:ADP1000 3.2 191.2 1.0
NH2 d:ARG366 3.9 25.5 1.0
O1B c:ADP1000 4.1 178.7 1.0
O2A c:ADP1000 4.3 210.7 1.0
O3A c:ADP1000 4.5 230.8 1.0
CD c:LYS184 4.6 23.4 1.0
OG1 c:THR185 4.6 21.8 1.0
O d:GLY337 4.8 23.7 1.0
CB c:LYS184 4.8 23.4 1.0
CZ d:ARG366 4.8 25.5 1.0
NH1 d:ARG366 4.9 25.5 1.0

Fluorine binding site 10 out of 18 in 8e70

Go back to Fluorine Binding Sites List in 8e70
Fluorine binding site 10 out of 18 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, DC75 Rut Mimic Rna, Mg-Adp-BEF3, and Nusg; Rho Hexamer Part within 5.0Å range:
probe atom residue distance (Å) B Occ
b:F1002

b:172.7
occ:1.00
 F1 b:BEF1002 0.0 172.7 1.0
BE b:BEF1002 1.5 164.8 1.0
F3 b:BEF1002 2.5 157.0 1.0
F2 b:BEF1002 2.6 177.2 1.0
O2B b:ADP1000 2.7 168.3 1.0
O c:GLY337 3.2 23.7 1.0
NZ b:LYS184 3.4 23.4 1.0
NH1 c:ARG366 3.6 25.5 1.0
NH2 c:ARG366 3.7 25.5 1.0
N b:LYS181 3.7 20.5 1.0
CB b:PRO180 3.8 23.0 1.0
CA b:PRO180 3.9 23.0 1.0
C c:GLY337 3.9 23.7 1.0
CZ c:ARG366 4.0 25.5 1.0
PB b:ADP1000 4.1 191.2 1.0
CA c:GLY337 4.1 23.7 1.0
MG b:MG1001 4.3 157.0 1.0
C b:PRO180 4.4 23.0 1.0
CE b:LYS184 4.4 23.4 1.0
O3B b:ADP1000 4.7 178.7 1.0
O1B b:ADP1000 4.7 188.5 1.0
CA b:LYS181 4.7 20.5 1.0

Reference:

V.Molodtsov, C.Wang, E.Firlar, J.T.Kaelber, R.H.Ebright. Structural Basis of Rho-Dependent Transcription Termination Biorxiv 2022.
DOI: 10.1101/2022.08.29.505764
Page generated: Fri Aug 2 17:59:26 2024

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