Atomistry » Magnesium » PDB 6z9a-6zid » 6z9t
Atomistry »
  Magnesium »
    PDB 6z9a-6zid »
      6z9t »

Magnesium in PDB 6z9t: Transcription Termination Intermediate Complex 5

Enzymatic activity of Transcription Termination Intermediate Complex 5

All present enzymatic activity of Transcription Termination Intermediate Complex 5:
2.7.7.6;

Other elements in 6z9t:

The structure of Transcription Termination Intermediate Complex 5 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 5 (pdb code 6z9t). 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 5, PDB code: 6z9t:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 1 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg1001

b:0.9
occ:1.00
F3 a:BEF1002 2.0 0.9 1.0
OG1 a:THR185 2.0 0.6 1.0
O a:HOH1102 2.1 1.0 1.0
O a:HOH1103 2.1 0.1 1.0
O a:HOH1101 2.3 0.2 1.0
O2B a:ADP1000 2.8 0.5 1.0
O1B a:ADP1000 2.9 0.5 1.0
BE a:BEF1002 3.1 0.9 1.0
F2 a:BEF1002 3.3 0.9 1.0
PB a:ADP1000 3.3 0.5 1.0
CB a:THR185 3.4 0.6 1.0
NZ a:LYS184 3.7 0.1 1.0
N a:THR185 4.0 0.6 1.0
O2A a:ADP1000 4.1 0.5 1.0
CG2 a:THR185 4.1 0.6 1.0
O1A a:ADP1000 4.1 0.5 1.0
CG a:LYS184 4.2 0.1 1.0
CA a:THR185 4.2 0.6 1.0
O3A a:ADP1000 4.3 0.5 1.0
PA a:ADP1000 4.3 0.5 1.0
OE1 a:GLU215 4.3 0.7 1.0
OE2 a:GLU215 4.4 0.7 1.0
CE a:LYS184 4.4 0.1 1.0
F1 a:BEF1002 4.4 0.9 1.0
O3B a:ADP1000 4.6 0.5 1.0
NH1 a:ARG212 4.6 0.0 1.0
OE2 a:GLU211 4.7 0.6 1.0
CD a:GLU215 4.7 0.7 1.0
CD a:LYS184 5.0 0.1 1.0

Magnesium binding site 2 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 2 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg1001

b:98.4
occ:1.00
O3B b:ADP1000 2.0 0.6 1.0
F3 b:BEF1002 2.0 1.0 1.0
OG1 b:THR185 2.0 92.3 1.0
O b:HOH1103 2.0 91.6 1.0
O b:HOH1102 2.0 0.1 1.0
O b:HOH1101 2.2 0.3 1.0
PB b:ADP1000 3.1 0.6 1.0
BE b:BEF1002 3.4 1.0 1.0
CB b:THR185 3.4 92.3 1.0
O2B b:ADP1000 3.7 0.6 1.0
O1B b:ADP1000 3.8 0.6 1.0
F2 b:BEF1002 4.0 1.0 1.0
CG2 b:THR185 4.0 92.3 1.0
OE2 b:GLU215 4.1 0.2 1.0
NZ b:LYS184 4.1 93.8 1.0
OE1 b:GLU215 4.2 0.2 1.0
N b:THR185 4.2 92.3 1.0
CA b:THR185 4.3 92.3 1.0
O3A b:ADP1000 4.4 0.6 1.0
CD b:GLU215 4.5 0.2 1.0
NH1 b:ARG212 4.5 0.8 1.0
F1 b:BEF1002 4.5 1.0 1.0
O2A b:ADP1000 4.6 0.6 1.0
CG b:LYS184 4.6 93.8 1.0
O1A b:ADP1000 4.7 0.6 1.0
OE2 b:GLU211 4.7 0.4 1.0
CE b:LYS184 4.7 93.8 1.0
PA b:ADP1000 4.8 0.6 1.0
NH2 a:ARG366 4.9 0.1 1.0

Magnesium binding site 3 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 3 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Mg1001

b:90.4
occ:1.00
O c:HOH1101 1.9 93.9 1.0
O3B c:ADP1000 2.0 0.0 1.0
O c:HOH1102 2.2 88.0 1.0
F3 c:BEF1002 2.2 0.3 1.0
O c:HOH1103 2.2 0.4 1.0
OG1 c:THR185 2.4 89.3 1.0
PB c:ADP1000 3.4 0.0 1.0
BE c:BEF1002 3.6 0.3 1.0
NZ c:LYS184 3.6 86.4 1.0
CB c:THR185 3.8 89.3 1.0
O2B c:ADP1000 3.9 0.0 1.0
O2A c:ADP1000 4.0 0.0 1.0
OE1 c:GLU215 4.0 95.3 1.0
F2 c:BEF1002 4.1 0.3 1.0
NH1 c:ARG212 4.1 86.2 1.0
OE2 c:GLU211 4.2 92.6 1.0
CG2 c:THR185 4.3 89.3 1.0
OE2 c:GLU215 4.3 95.3 1.0
O1A c:ADP1000 4.3 0.0 1.0
O1B c:ADP1000 4.3 0.0 1.0
O3A c:ADP1000 4.3 0.0 1.0
CE c:LYS184 4.4 86.4 1.0
PA c:ADP1000 4.4 0.0 1.0
CG c:LYS184 4.5 86.4 1.0
CD c:GLU215 4.5 95.3 1.0
N c:THR185 4.5 89.3 1.0
CA c:THR185 4.6 89.3 1.0
F1 c:BEF1002 4.7 0.3 1.0
NH2 b:ARG366 4.8 91.9 1.0

Magnesium binding site 4 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 4 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg1001

b:0.1
occ:1.00
OG1 d:THR185 2.0 0.6 1.0
F3 d:BEF1002 2.1 0.6 1.0
O d:HOH1101 2.1 0.6 1.0
O d:HOH1103 2.1 99.0 1.0
O1B d:ADP1000 2.3 0.5 1.0
O d:HOH1102 2.4 0.6 1.0
O2B d:ADP1000 2.9 0.5 1.0
PB d:ADP1000 3.1 0.5 1.0
BE d:BEF1002 3.3 0.6 1.0
CB d:THR185 3.5 0.6 1.0
F2 d:BEF1002 3.5 0.6 1.0
N d:THR185 4.0 0.6 1.0
O2A d:ADP1000 4.0 0.5 1.0
NZ d:LYS184 4.0 91.8 1.0
O1A d:ADP1000 4.1 0.5 1.0
O3A d:ADP1000 4.2 0.5 1.0
O3B d:ADP1000 4.2 0.5 1.0
CG d:LYS184 4.2 91.8 1.0
CG2 d:THR185 4.3 0.6 1.0
CA d:THR185 4.3 0.6 1.0
PA d:ADP1000 4.3 0.5 1.0
OE2 d:GLU215 4.5 0.5 1.0
F1 d:BEF1002 4.5 0.6 1.0
CE d:LYS184 4.5 91.8 1.0
OE1 d:GLU215 4.7 0.5 1.0
N d:LYS184 4.8 91.8 1.0
CD d:GLU215 4.9 0.5 1.0
NH1 d:ARG212 5.0 95.0 1.0
NH2 c:ARG366 5.0 95.7 1.0

Magnesium binding site 5 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 5 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Mg1001

b:0.1
occ:1.00
F3 e:BEF1002 2.0 0.5 1.0
OG1 e:THR185 2.0 0.1 1.0
O1B e:ADP1000 2.0 0.6 1.0
O e:HOH1102 2.0 0.5 1.0
O e:HOH1103 2.1 0.6 1.0
O e:HOH1101 2.4 0.0 1.0
PB e:ADP1000 3.1 0.6 1.0
O2B e:ADP1000 3.2 0.6 1.0
CB e:THR185 3.3 0.1 1.0
BE e:BEF1002 3.4 0.5 1.0
N e:THR185 3.7 0.1 1.0
F2 e:BEF1002 3.8 0.5 1.0
O3B e:ADP1000 4.1 0.6 1.0
CA e:THR185 4.1 0.1 1.0
O1A e:ADP1000 4.1 0.6 1.0
O3A e:ADP1000 4.2 0.6 1.0
CG e:LYS184 4.2 0.4 1.0
CG2 e:THR185 4.3 0.1 1.0
O2A e:ADP1000 4.3 0.6 1.0
N e:LYS184 4.3 0.4 1.0
PA e:ADP1000 4.4 0.6 1.0
NZ e:LYS184 4.5 0.4 1.0
F1 e:BEF1002 4.5 0.5 1.0
OE2 e:GLU215 4.7 0.3 1.0
C e:LYS184 4.8 0.4 1.0
CE e:LYS184 4.8 0.4 1.0
N e:GLY183 4.8 0.5 1.0
CA e:GLY183 4.9 0.5 1.0
C e:GLY183 5.0 0.5 1.0

Magnesium binding site 6 out of 6 in 6z9t

Go back to Magnesium Binding Sites List in 6z9t
Magnesium binding site 6 out of 6 in the Transcription Termination Intermediate Complex 5


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 5 within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Mg1501

b:91.2
occ:1.00
OD1 Y:ASP462 2.1 68.5 1.0
OD1 Y:ASP460 2.1 76.2 1.0
OD1 Y:ASP464 2.4 83.9 1.0
OD2 Y:ASP462 2.7 68.5 1.0
CG Y:ASP462 2.7 68.5 1.0
CG Y:ASP460 2.7 76.2 1.0
OD2 Y:ASP460 2.8 76.2 1.0
OD2 Y:ASP464 3.0 83.9 1.0
CG Y:ASP464 3.1 83.9 1.0
CB Y:ASP460 4.1 76.2 1.0
O Y:ASP460 4.1 76.2 1.0
CB Y:ASP462 4.2 68.5 1.0
N Y:ASP460 4.4 76.2 1.0
C Y:ASP460 4.5 76.2 1.0
CB Y:ASP464 4.5 83.9 1.0
CA Y:ASP460 4.6 76.2 1.0
N Y:ASP462 4.6 68.5 1.0
NH1 Y:ARG425 4.7 75.4 1.0
CA Y:ASP462 4.9 68.5 1.0
N Y:ASP464 4.9 83.9 1.0

Reference:

N.Said, T.Hilal, B.Loll, M.C.Wahl. Snapshots Along A Factor-Mediated, Elongation Complex-Dependent Path to Transcription Termination To Be Published.
Page generated: Wed Oct 2 02:14:06 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