Atomistry » Magnesium » PDB 8e1u-8ec1 » 8e70
Atomistry »
  Magnesium »
    PDB 8e1u-8ec1 »
      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 Aug 15 03:38:45 2025

Last articles

Mg in 8OLY
Mg in 8OMM
Mg in 8OMI
Mg in 8OM0
Mg in 8OMA
Mg in 8OM9
Mg in 8OM5
Mg in 8OM1
Mg in 8OLS
Mg in 8OLV
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy