Atomistry » Magnesium » PDB 8e1h-8ea4 » 8e6w
Atomistry »
  Magnesium »
    PDB 8e1h-8ea4 »
      8e6w »

Magnesium in PDB 8e6w: Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho Part

Other elements in 8e6w:

The structure of Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho Part (pdb code 8e6w). 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho Part, PDB code: 8e6w:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 1 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O3B 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
O2B 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
O2A 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
O1B 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
O1A 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 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 2 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O3B 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
O2B 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
O1B 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 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 3 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O1B 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
O3B 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 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 4 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O1A 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
O2A 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 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 5 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O2B 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
O1B 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
O1A 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
O2A 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 8e6w

Go back to Magnesium Binding Sites List in 8e6w
Magnesium binding site 6 out of 6 in the Escherichia Coli Rho-Dependent Transcription Pre-Termination Complex Containing 18 Nt Long Rna Spacer, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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, Lambda-TR1 Rut Rna, Mg-Adp-BEF3, and Nusg; Rho 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
O2A 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
O1A 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 01:02:31 2024

Last articles

Ca in 2RDZ
Ca in 2RDJ
Ca in 2REX
Ca in 2RE1
Ca in 2R8Z
Ca in 2R8Y
Ca in 2RD4
Ca in 2RAQ
Ca in 2RBM
Ca in 2RAU
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy