Atomistry » Magnesium » PDB 7a1w-7ads » 7adc
Atomistry »
  Magnesium »
    PDB 7a1w-7ads »
      7adc »

Magnesium in PDB 7adc: Transcription Termination Intermediate Complex 3 Delta Nusg

Enzymatic activity of Transcription Termination Intermediate Complex 3 Delta Nusg

All present enzymatic activity of Transcription Termination Intermediate Complex 3 Delta Nusg:
2.7.7.6;

Other elements in 7adc:

The structure of Transcription Termination Intermediate Complex 3 Delta Nusg also contains other interesting chemical elements:

Fluorine (F) 15 atoms
Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Transcription Termination Intermediate Complex 3 Delta Nusg (pdb code 7adc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Transcription Termination Intermediate Complex 3 Delta Nusg, PDB code: 7adc:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 1 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg1001

b:0.9
occ:1.00
 O1B a:ADP1000 2.0 0.5 1.0
OG1 a:THR185 2.0 0.9 1.0
O a:HOH1102 2.1 0.7 1.0
O a:HOH1103 2.1 0.5 1.0
O a:HOH1101 2.6 0.9 1.0
O2B a:ADP1000 2.7 0.5 1.0
PB a:ADP1000 2.8 0.5 1.0
CB a:THR185 3.0 0.9 1.0
F3 a:BEF1002 3.0 0.5 1.0
O2A a:ADP1000 3.2 0.5 1.0
F1 a:BEF1002 3.4 0.5 1.0
BE a:BEF1002 3.5 0.5 1.0
N a:THR185 3.7 0.9 1.0
O3A a:ADP1000 3.8 0.5 1.0
CA a:THR185 3.9 0.9 1.0
O3B a:ADP1000 4.0 0.5 1.0
PA a:ADP1000 4.0 0.5 1.0
NZ a:LYS184 4.1 0.9 1.0
CG2 a:THR185 4.1 0.9 1.0
OE2 a:GLU215 4.5 0.8 1.0
O1A a:ADP1000 4.7 0.5 1.0
NH1 a:ARG212 4.8 0.4 1.0
CD a:GLU215 4.9 0.8 1.0
C a:LYS184 4.9 0.9 1.0
N a:LYS184 5.0 0.9 1.0

Magnesium binding site 2 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 2 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg1001

b:0.2
occ:1.00
 O b:HOH1103 2.1 0.3 1.0
F3 b:BEF1002 2.2 0.3 1.0
O b:HOH1101 2.2 0.2 1.0
OG1 b:THR185 2.2 0.6 1.0
O3B b:ADP1000 2.2 0.5 1.0
O2B b:ADP1000 2.4 0.5 1.0
O b:HOH1102 2.6 0.2 1.0
PB b:ADP1000 2.7 0.5 1.0
NZ b:LYS184 3.1 0.3 1.0
CB b:THR185 3.2 0.6 1.0
N b:THR185 3.3 0.6 1.0
BE b:BEF1002 3.4 0.3 1.0
F2 b:BEF1002 3.7 0.3 1.0
O1B b:ADP1000 3.7 0.5 1.0
CA b:THR185 3.8 0.6 1.0
O2A b:ADP1000 4.0 0.5 1.0
O3A b:ADP1000 4.0 0.5 1.0
CE b:LYS184 4.1 0.3 1.0
C b:LYS184 4.3 0.3 1.0
N b:LYS184 4.3 0.3 1.0
PA b:ADP1000 4.3 0.5 1.0
CB b:LYS184 4.4 0.3 1.0
O1A b:ADP1000 4.5 0.5 1.0
CG2 b:THR185 4.5 0.6 1.0
CA b:LYS184 4.6 0.3 1.0
F1 b:BEF1002 4.6 0.3 1.0
CG b:LYS184 5.0 0.3 1.0

Magnesium binding site 3 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 3 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Mg502

b:0.6
occ:1.00
 O3B c:ADP501 2.0 0.0 1.0
O c:HOH603 2.0 96.1 1.0
F3 c:BEF503 2.0 0.6 1.0
O c:HOH601 2.1 0.7 1.0
O c:HOH602 2.2 0.9 1.0
OG1 c:THR185 2.3 0.5 1.0
NZ c:LYS184 3.1 0.9 1.0
PB c:ADP501 3.2 0.0 1.0
CB c:THR185 3.3 0.5 1.0
BE c:BEF503 3.4 0.6 1.0
N c:THR185 3.4 0.5 1.0
O1B c:ADP501 3.4 0.0 1.0
F2 c:BEF503 3.6 0.6 1.0
CA c:THR185 3.9 0.5 1.0
O3A c:ADP501 4.0 0.0 1.0
CE c:LYS184 4.1 0.9 1.0
O1A c:ADP501 4.3 0.0 1.0
O2B c:ADP501 4.4 0.0 1.0
C c:LYS184 4.4 0.9 1.0
O2A c:ADP501 4.4 0.0 1.0
N c:LYS184 4.4 0.9 1.0
PA c:ADP501 4.4 0.0 1.0
CB c:LYS184 4.5 0.9 1.0
F1 c:BEF503 4.5 0.6 1.0
CG2 c:THR185 4.6 0.5 1.0
CA c:LYS184 4.6 0.9 1.0
CG c:LYS184 5.0 0.9 1.0

Magnesium binding site 4 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 4 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg1001

b:0.3
occ:1.00
 F3 c:BEF504 2.0 0.9 1.0
OG1 d:THR185 2.0 0.6 1.0
O1B d:ADP1000 2.1 0.7 1.0
O d:HOH1101 2.1 97.8 1.0
O d:HOH1102 2.2 0.2 1.0
O d:HOH1103 2.7 0.2 1.0
PB d:ADP1000 3.2 0.7 1.0
CB d:THR185 3.2 0.6 1.0
BE c:BEF504 3.3 0.9 1.0
O2B d:ADP1000 3.4 0.7 1.0
F2 c:BEF504 3.5 0.9 1.0
NZ d:LYS184 3.9 0.9 1.0
N d:THR185 3.9 0.6 1.0
CA d:THR185 4.0 0.6 1.0
O3B d:ADP1000 4.1 0.7 1.0
F1 c:BEF504 4.1 0.9 1.0
O1A d:ADP1000 4.3 0.7 1.0
CG2 d:THR185 4.3 0.6 1.0
O3A d:ADP1000 4.3 0.7 1.0
NH1 d:ARG212 4.5 83.2 1.0
PA d:ADP1000 4.6 0.7 1.0
O2A d:ADP1000 4.6 0.7 1.0
OE2 d:GLU215 4.7 89.8 1.0
CE d:LYS184 4.9 0.9 1.0
CD d:GLU215 4.9 89.8 1.0
OE2 d:GLU211 4.9 85.1 1.0

Magnesium binding site 5 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 5 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Mg1001

b:0.1
occ:1.00
 F3 e:BEF1002 2.1 0.9 1.0
O e:HOH1103 2.2 0.8 1.0
O1B e:ADP1000 2.2 0.8 1.0
OG1 e:THR185 2.4 0.7 1.0
O e:HOH1101 2.5 0.6 1.0
O2B e:ADP1000 2.6 0.8 1.0
PB e:ADP1000 2.9 0.8 1.0
O e:HOH1102 3.0 0.6 1.0
CB e:THR185 3.1 0.7 1.0
F2 e:BEF1002 3.2 0.9 1.0
BE e:BEF1002 3.2 0.9 1.0
O1A e:ADP1000 3.7 0.8 1.0
N e:THR185 3.8 0.7 1.0
O3A e:ADP1000 3.9 0.8 1.0
CA e:THR185 4.0 0.7 1.0
O3B e:ADP1000 4.1 0.8 1.0
PA e:ADP1000 4.1 0.8 1.0
F1 e:BEF1002 4.2 0.9 1.0
NZ e:LYS184 4.2 0.2 1.0
CG2 e:THR185 4.2 0.7 1.0
O2A e:ADP1000 4.3 0.8 1.0
OE2 e:GLU215 4.6 0.0 1.0
N e:LYS184 4.7 0.2 1.0
C e:LYS184 4.9 0.2 1.0

Magnesium binding site 6 out of 6 in 7adc

Go back to Magnesium Binding Sites List in 7adc
Magnesium binding site 6 out of 6 in the Transcription Termination Intermediate Complex 3 Delta Nusg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Transcription Termination Intermediate Complex 3 Delta Nusg within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Mg1501

b:66.5
occ:1.00
 O3' R:C99 2.1 77.8 1.0
OD1 Y:ASP460 2.1 47.5 1.0
OD1 Y:ASP462 2.2 48.6 1.0
OD1 Y:ASP464 2.4 50.8 1.0
CG Y:ASP460 2.7 47.5 1.0
OD2 Y:ASP460 2.8 47.5 1.0
OD2 Y:ASP462 2.9 48.6 1.0
CG Y:ASP462 2.9 48.6 1.0
CG Y:ASP464 3.2 50.8 1.0
OD2 Y:ASP464 3.3 50.8 1.0
C3' R:C99 3.4 77.8 1.0
O2' R:C99 3.7 77.8 1.0
C4' R:C99 4.0 77.8 1.0
C2' R:C99 4.1 77.8 1.0
CB Y:ASP460 4.1 47.5 1.0
O Y:ASP460 4.2 47.5 1.0
CB Y:ASP462 4.4 48.6 1.0
CB Y:ASP464 4.5 50.8 1.0
N Y:ASP460 4.6 47.5 1.0
C Y:ASP460 4.6 47.5 1.0
NH1 Y:ARG425 4.6 49.4 1.0
CA Y:ASP460 4.7 47.5 1.0
C5' R:C99 4.7 77.8 1.0
N Y:ASP462 4.8 48.6 1.0
N Y:ASP464 4.8 50.8 1.0
CA Y:ASP462 5.0 48.6 1.0

Reference:

N.Said, T.Hilal, N.D.Sunday, A.Khatri, J.Buerger, T.Mielke, B.Loll, R.Sen, I.Artsimovitch, M.C.Wahl. Snapshots Along A Factor-Mediated, Elongation Complex-Dependent Path to Transcription Termination To Be Published.
Page generated: Wed Oct 2 09:13:08 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy