Atomistry » Magnesium » PDB 8e1h-8ea4 » 8e70
Atomistry »
  Magnesium »
    PDB 8e1h-8ea4 »
      8e70 »

Magnesium 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:

Fluorine (F) 18 atoms

Magnesium Binding Sites:

The binding sites of Magnesium 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 Magnesium atom.
In total 6 binding sites of Magnesium 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 Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 1 out of 6 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 Magnesium with other atoms in the Mg 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:Mg1001

b:157.0
occ:1.00
 F3 e:BEF1002 1.9 157.0 1.0
O2B e:ADP1000 2.2 188.5 1.0
BE e:BEF1002 3.2 164.8 1.0
PB e:ADP1000 3.3 191.2 1.0
OG1 e:THR185 3.3 21.8 1.0
O1B e:ADP1000 3.3 168.3 1.0
CE e:LYS184 3.3 23.4 1.0
NZ e:LYS184 3.5 23.4 1.0
F2 e:BEF1002 3.8 177.2 1.0
CB e:LYS184 3.9 23.4 1.0
O1A e:ADP1000 3.9 210.7 1.0
N e:THR185 4.1 21.8 1.0
F1 e:BEF1002 4.3 172.7 1.0
OD2 e:ASP265 4.4 21.4 1.0
O3B e:ADP1000 4.4 178.7 1.0
O3A e:ADP1000 4.4 230.8 1.0
CD e:LYS184 4.5 23.4 1.0
PA e:ADP1000 4.5 227.2 1.0
NH2 f:ARG366 4.5 25.5 1.0
CB e:THR185 4.5 21.8 1.0
C e:LYS184 4.6 23.4 1.0
CA e:THR185 4.6 21.8 1.0
CG e:LYS184 4.7 23.4 1.0
CA e:LYS184 4.7 23.4 1.0
O2A e:ADP1000 4.8 197.9 1.0
OD1 e:ASP265 4.9 21.4 1.0

Magnesium binding site 2 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 2 out of 6 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 Magnesium with other atoms in the Mg 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
f:Mg1001

b:157.0
occ:1.00
 F3 f:BEF1002 1.8 157.0 1.0
O2B f:ADP1000 2.2 188.5 1.0
BE f:BEF1002 3.2 164.8 1.0
PB f:ADP1000 3.3 191.2 1.0
OG1 f:THR185 3.3 21.8 1.0
O1B f:ADP1000 3.3 168.3 1.0
CE f:LYS184 3.3 23.4 1.0
NZ f:LYS184 3.5 23.4 1.0
F2 f:BEF1002 3.8 177.2 1.0
CB f:LYS184 3.9 23.4 1.0
O1A f:ADP1000 3.9 210.7 1.0
N f:THR185 4.1 21.8 1.0
F1 f:BEF1002 4.3 172.7 1.0
OD2 f:ASP265 4.4 21.4 1.0
O3B f:ADP1000 4.4 178.7 1.0
O3A f:ADP1000 4.4 230.8 1.0
CD f:LYS184 4.5 23.4 1.0
PA f:ADP1000 4.5 227.2 1.0
CB f:THR185 4.5 21.8 1.0
NH2 a:ARG366 4.6 25.5 1.0
C f:LYS184 4.6 23.4 1.0
CA f:THR185 4.6 21.8 1.0
CG f:LYS184 4.7 23.4 1.0
CA f:LYS184 4.7 23.4 1.0
O2A f:ADP1000 4.8 197.9 1.0
OD1 f:ASP265 4.9 21.4 1.0

Magnesium binding site 3 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 3 out of 6 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 Magnesium with other atoms in the Mg 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
c:Mg1001

b:157.0
occ:1.00
 F3 c:BEF1002 1.8 157.0 1.0
O3B c:ADP1000 2.2 188.5 1.0
BE c:BEF1002 3.2 164.8 1.0
PB c:ADP1000 3.3 191.2 1.0
OG1 c:THR185 3.3 21.8 1.0
O2B c:ADP1000 3.3 168.3 1.0
CE c:LYS184 3.3 23.4 1.0
NZ c:LYS184 3.5 23.4 1.0
F2 c:BEF1002 3.8 177.2 1.0
CB c:LYS184 3.9 23.4 1.0
O2A c:ADP1000 3.9 210.7 1.0
N c:THR185 4.1 21.8 1.0
F1 c:BEF1002 4.3 172.7 1.0
OD2 c:ASP265 4.4 21.4 1.0
O1B c:ADP1000 4.4 178.7 1.0
O3A c:ADP1000 4.4 230.8 1.0
CD c:LYS184 4.5 23.4 1.0
PA c:ADP1000 4.5 227.2 1.0
CB c:THR185 4.5 21.8 1.0
NH2 d:ARG366 4.6 25.5 1.0
C c:LYS184 4.6 23.4 1.0
CA c:THR185 4.6 21.8 1.0
CG c:LYS184 4.7 23.4 1.0
CA c:LYS184 4.7 23.4 1.0
O1A c:ADP1000 4.8 197.9 1.0
OD1 c:ASP265 4.9 21.4 1.0

Magnesium binding site 4 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 4 out of 6 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 Magnesium with other atoms in the Mg 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
b:Mg1001

b:157.0
occ:1.00
 F3 b:BEF1002 1.8 157.0 1.0
O1B b:ADP1000 2.2 188.5 1.0
BE b:BEF1002 3.2 164.8 1.0
PB b:ADP1000 3.3 191.2 1.0
OG1 b:THR185 3.3 21.8 1.0
O2B b:ADP1000 3.3 168.3 1.0
CE b:LYS184 3.3 23.4 1.0
NZ b:LYS184 3.5 23.4 1.0
F2 b:BEF1002 3.8 177.2 1.0
CB b:LYS184 3.9 23.4 1.0
O2A b:ADP1000 3.9 210.7 1.0
N b:THR185 4.1 21.8 1.0
F1 b:BEF1002 4.3 172.7 1.0
OD2 b:ASP265 4.4 21.4 1.0
O3B b:ADP1000 4.4 178.7 1.0
O3A b:ADP1000 4.4 230.8 1.0
OE2 b:GLU211 4.4 24.4 1.0
CD b:LYS184 4.5 23.4 1.0
PA b:ADP1000 4.5 227.2 1.0
CB b:THR185 4.5 21.8 1.0
NH2 c:ARG366 4.6 25.5 1.0
C b:LYS184 4.6 23.4 1.0
CA b:THR185 4.6 21.8 1.0
CG b:LYS184 4.7 23.4 1.0
CA b:LYS184 4.7 23.4 1.0
O1A b:ADP1000 4.8 197.9 1.0
OD1 b:ASP265 4.9 21.4 1.0

Magnesium binding site 5 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 5 out of 6 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 Magnesium with other atoms in the Mg 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
a:Mg1001

b:157.0
occ:1.00
 F3 a:BEF1002 1.9 157.0 1.0
O1B a:ADP1000 2.2 188.5 1.0
BE a:BEF1002 3.2 164.8 1.0
PB a:ADP1000 3.3 191.2 1.0
OG1 a:THR185 3.3 21.8 1.0
O2B a:ADP1000 3.3 168.3 1.0
CE a:LYS184 3.3 23.4 1.0
NZ a:LYS184 3.5 23.4 1.0
F2 a:BEF1002 3.8 177.2 1.0
CB a:LYS184 3.9 23.4 1.0
O2A a:ADP1000 3.9 210.7 1.0
N a:THR185 4.1 21.8 1.0
F1 a:BEF1002 4.3 172.7 1.0
OD2 a:ASP265 4.4 21.4 1.0
O3B a:ADP1000 4.4 178.7 1.0
O3A a:ADP1000 4.4 230.8 1.0
OE2 a:GLU211 4.4 24.4 1.0
CD a:LYS184 4.5 23.4 1.0
PA a:ADP1000 4.5 227.2 1.0
CB a:THR185 4.5 21.8 1.0
NH2 b:ARG366 4.6 25.5 1.0
C a:LYS184 4.6 23.4 1.0
CA a:THR185 4.6 21.8 1.0
CG a:LYS184 4.7 23.4 1.0
CA a:LYS184 4.7 23.4 1.0
O1A a:ADP1000 4.8 197.9 1.0
OD1 a:ASP265 4.9 21.4 1.0

Magnesium binding site 6 out of 6 in 8e70

Go back to Magnesium Binding Sites List in 8e70
Magnesium binding site 6 out of 6 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 Magnesium with other atoms in the Mg 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
d:Mg1001

b:157.0
occ:1.00
 F3 d:BEF1002 1.8 157.0 1.0
O3B d:ADP1000 2.2 188.5 1.0
BE d:BEF1002 3.2 164.8 1.0
PB d:ADP1000 3.3 191.2 1.0
OG1 d:THR185 3.3 21.8 1.0
O2B d:ADP1000 3.3 168.3 1.0
CE d:LYS184 3.3 23.4 1.0
NZ d:LYS184 3.5 23.4 1.0
F2 d:BEF1002 3.8 177.2 1.0
CB d:LYS184 3.9 23.4 1.0
O1A d:ADP1000 3.9 210.7 1.0
N d:THR185 4.1 21.8 1.0
F1 d:BEF1002 4.3 172.7 1.0
OD2 d:ASP265 4.4 21.4 1.0
O1B d:ADP1000 4.4 178.7 1.0
O3A d:ADP1000 4.4 230.8 1.0
NH2 e:ARG366 4.4 25.5 1.0
OE2 d:GLU211 4.4 24.4 1.0
CD d:LYS184 4.5 23.4 1.0
PA d:ADP1000 4.5 227.2 1.0
CB d:THR185 4.5 21.8 1.0
C d:LYS184 4.6 23.4 1.0
CA d:THR185 4.6 21.8 1.0
CG d:LYS184 4.7 23.4 1.0
CA d:LYS184 4.7 23.4 1.0
O2A d:ADP1000 4.8 197.9 1.0
OD1 d:ASP265 4.9 21.4 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 Oct 4 01:03:22 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy