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

K in 9G9W
K in 9G9X
K in 9ESI
K in 9ESH
K in 8ZEX
K in 8VAV
K in 8VAZ
K in 8RMH
K in 8K1E
K in 7G7O
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy