Magnesium in PDB 8v32: Tnsd-Tnsc-Dna Complex

Other elements in 8v32:

The structure of Tnsd-Tnsc-Dna Complex also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Tnsd-Tnsc-Dna Complex (pdb code 8v32). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Tnsd-Tnsc-Dna Complex, PDB code: 8v32:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 1 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Q:Mg601

b:73.6
occ:1.00
 O1G Q:ATP600 2.1 69.6 1.0
O3B Q:ATP600 2.2 52.4 1.0
OG1 Q:THR64 2.3 57.0 1.0
PG Q:ATP600 2.4 67.6 1.0
O3G Q:ATP600 2.9 68.5 1.0
CB Q:THR64 3.6 55.5 1.0
PB Q:ATP600 3.6 33.4 1.0
O2G Q:ATP600 3.9 50.2 1.0
OD2 Q:ASP171 3.9 62.4 1.0
OD1 Q:ASP171 4.0 68.2 1.0
O1B Q:ATP600 4.0 57.3 1.0
NH1 R:ARG224 4.2 58.7 1.0
CG Q:ASP171 4.3 67.4 1.0
O3A Q:ATP600 4.3 62.9 1.0
OE2 Q:GLU172 4.4 68.1 1.0
CG2 Q:THR64 4.4 55.6 1.0
N Q:THR64 4.5 57.5 1.0
CA Q:THR64 4.5 52.8 1.0
O2B Q:ATP600 4.7 59.1 1.0
OE1 Q:GLU95 4.9 66.5 1.0
CD Q:GLU172 5.0 68.9 1.0
O5' Q:ATP600 5.0 68.9 1.0

Magnesium binding site 2 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 2 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg601

b:69.1
occ:1.00
 OG1 R:THR64 2.0 44.6 1.0
O3G R:ATP600 2.0 53.0 1.0
O1B R:ATP600 3.3 52.0 1.0
CB R:THR64 3.3 36.0 1.0
PG R:ATP600 3.5 53.2 1.0
OD1 R:ASP171 3.5 49.8 1.0
CG2 R:THR64 3.9 38.1 1.0
O3B R:ATP600 4.1 38.6 1.0
O2G R:ATP600 4.2 39.7 1.0
PB R:ATP600 4.2 49.6 1.0
CG R:ASP171 4.3 51.6 1.0
O2A R:ATP600 4.3 49.1 1.0
CA R:THR64 4.4 31.6 1.0
O1G R:ATP600 4.4 55.4 1.0
N R:THR64 4.5 34.2 1.0
OE2 R:GLU172 4.6 58.2 1.0
OD2 R:ASP171 4.6 54.7 1.0
NH1 S:ARG224 4.7 44.7 1.0
ND2 S:ASN197 4.9 52.5 1.0
O3A R:ATP600 4.9 38.5 1.0
CD R:GLU172 4.9 63.3 1.0

Magnesium binding site 3 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 3 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Mg601

b:50.1
occ:1.00
 OG1 S:THR64 2.0 44.8 1.0
O S:HOH701 2.4 66.8 1.0
O3B S:ATP600 3.0 39.3 1.0
CB S:THR64 3.3 37.5 1.0
O1G S:ATP600 3.4 49.0 1.0
O1B S:ATP600 3.8 54.8 1.0
CG2 S:THR64 3.8 39.9 1.0
PG S:ATP600 3.8 49.1 1.0
PB S:ATP600 3.9 37.4 1.0
OE1 S:GLU172 4.0 55.2 1.0
OD1 S:ASP171 4.0 45.8 1.0
NH2 T:ARG224 4.2 44.6 1.0
O3A S:ATP600 4.4 41.9 1.0
CA S:THR64 4.4 34.4 1.0
OD2 S:ASP171 4.4 50.6 1.0
CG S:ASP171 4.5 48.1 1.0
O3G S:ATP600 4.5 53.5 1.0
CD S:GLU172 4.5 55.8 1.0
N S:THR64 4.6 41.6 1.0

Magnesium binding site 4 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 4 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
T:Mg601

b:61.0
occ:1.00
 OG1 T:THR64 2.1 46.9 1.0
O1B T:ATP600 2.3 51.9 1.0
O1G T:ATP600 2.8 46.4 1.0
CB T:THR64 3.4 41.3 1.0
PB T:ATP600 3.5 10.1 1.0
O3B T:ATP600 3.7 31.0 1.0
PG T:ATP600 3.7 65.5 1.0
O2A T:ATP600 4.0 52.1 1.0
O3G T:ATP600 4.1 53.6 1.0
CG2 T:THR64 4.2 48.5 1.0
NH2 U:ARG224 4.3 54.0 1.0
OD2 T:ASP171 4.3 51.3 1.0
OD1 T:ASP171 4.4 45.8 1.0
O3A T:ATP600 4.4 40.2 1.0
OE2 T:GLU172 4.4 58.5 1.0
CA T:THR64 4.4 31.6 1.0
N T:THR64 4.4 28.1 1.0
CG T:ASP171 4.6 49.1 1.0
O2B T:ATP600 4.7 49.9 1.0
CD T:GLU172 4.8 57.1 1.0
PA T:ATP600 4.8 55.4 1.0
CZ U:ARG224 5.0 49.9 1.0

Magnesium binding site 5 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 5 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
U:Mg601

b:38.6
occ:1.00
 OG1 U:THR64 2.0 48.9 1.0
O3G U:ATP600 2.2 51.9 1.0
O3B U:ATP600 2.8 35.5 1.0
PG U:ATP600 3.1 52.1 1.0
CB U:THR64 3.4 45.3 1.0
O3A U:ATP600 3.7 37.0 1.0
OD1 U:ASP171 3.8 56.3 1.0
PB U:ATP600 4.0 33.2 1.0
O2G U:ATP600 4.0 57.2 1.0
CG2 U:THR64 4.2 44.9 1.0
O1G U:ATP600 4.2 47.5 1.0
N U:THR64 4.3 41.6 1.0
CA U:THR64 4.4 40.5 1.0
CG U:ASP171 4.4 55.9 1.0
OD2 U:ASP171 4.4 53.9 1.0
NH1 V:ARG224 4.6 51.6 1.0
NH2 V:ARG224 4.7 53.0 1.0
OE2 U:GLU172 4.8 52.0 1.0
NE2 V:GLN220 4.8 41.9 1.0
O1B U:ATP600 4.9 56.6 1.0
O2A U:ATP600 4.9 57.2 1.0
PA U:ATP600 5.0 55.4 1.0
CG U:GLU172 5.0 57.4 1.0

Magnesium binding site 6 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 6 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
V:Mg601

b:59.8
occ:1.00
 OG1 V:THR64 2.0 51.1 1.0
O1B V:ATP600 2.2 60.8 1.0
O1G V:ATP600 2.4 48.6 1.0
PB V:ATP600 3.4 45.8 1.0
CB V:THR64 3.4 49.0 1.0
PG V:ATP600 3.5 53.1 1.0
O3B V:ATP600 3.7 45.3 1.0
NH2 W:ARG224 4.0 60.5 1.0
O3A V:ATP600 4.1 43.8 1.0
NH1 W:ARG224 4.1 67.8 1.0
N V:THR64 4.2 36.0 1.0
CG2 V:THR64 4.2 48.2 1.0
CA V:THR64 4.3 41.6 1.0
O3G V:ATP600 4.5 66.1 1.0
CZ W:ARG224 4.6 62.6 1.0
O2G V:ATP600 4.6 60.9 1.0
O2B V:ATP600 4.6 63.0 1.0
NE2 W:GLN220 4.8 52.9 1.0
OE2 V:GLU172 4.8 62.4 1.0
OD1 V:ASP171 4.8 54.4 1.0
OD2 V:ASP171 4.9 46.4 1.0
CG V:ASP171 5.0 52.1 1.0

Magnesium binding site 7 out of 7 in 8v32

Go back to Magnesium Binding Sites List in 8v32
Magnesium binding site 7 out of 7 in the Tnsd-Tnsc-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Tnsd-Tnsc-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
W:Mg601

b:116.9
occ:1.00
 O3G W:ATP600 2.1 123.7 1.0
O3B W:ATP600 2.2 124.4 1.0
PG W:ATP600 2.3 130.3 1.0
CG2 W:THR64 2.4 106.2 1.0
O1G W:ATP600 2.7 122.5 1.0
PB W:ATP600 3.3 120.8 1.0
O1B W:ATP600 3.3 119.7 1.0
OD1 W:ASP171 3.6 94.4 1.0
O2G W:ATP600 3.8 124.4 1.0
CB W:THR64 3.9 105.4 1.0
O2B W:ATP600 4.2 121.0 1.0
CG W:ASP171 4.3 93.5 1.0
O3A W:ATP600 4.4 120.6 1.0
N W:THR64 4.5 107.1 1.0
OD2 W:ASP171 4.6 93.0 1.0
CA W:THR64 4.6 107.2 1.0
OG1 W:THR64 4.6 105.8 1.0
NZ W:LYS63 4.8 105.2 1.0
CB W:GLU172 4.8 88.1 1.0
CE W:LYS63 4.9 106.1 1.0
O2A W:ATP600 5.0 117.7 1.0

Reference:

L.Chang, S.Wang. Structure of Tnsabcd Transpososome Reveals Mechanisms of Targeted Dna Transposition Cell(Cambridge,Mass.) 2024.
ISSN: ISSN 0092-8674
Page generated: Thu Oct 31 22:14:18 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy