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Magnesium in PDB 8bd4: Tniq-Capped Tns-Atp-Dsdna Complex

Other elements in 8bd4:

The structure of Tniq-Capped Tns-Atp-Dsdna Complex also contains other interesting chemical elements:

Zinc (Zn) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Tniq-Capped Tns-Atp-Dsdna Complex (pdb code 8bd4). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Tniq-Capped Tns-Atp-Dsdna Complex, PDB code: 8bd4:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 8bd4

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Magnesium binding site 1 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:283.6
occ:1.00
 O1G A:ATP301 2.1 291.4 1.0
O1B A:ATP301 2.1 292.4 1.0
PG A:ATP301 2.4 291.3 1.0
OG1 A:THR67 2.4 293.2 1.0
O2G A:ATP301 2.4 291.1 1.0
O3B A:ATP301 2.7 291.8 1.0
PB A:ATP301 2.8 292.6 1.0
O3A A:ATP301 3.5 291.8 1.0
CB A:THR67 3.6 293.0 1.0
O2A A:ATP301 3.9 292.3 1.0
O3G A:ATP301 3.9 291.0 1.0
O2B A:ATP301 4.2 291.9 1.0
PA A:ATP301 4.2 292.8 1.0
N A:THR67 4.3 293.1 1.0
NH2 B:ARG189 4.3 263.8 1.0
OD1 A:ASP144 4.5 258.2 1.0
CA A:THR67 4.5 293.0 1.0
CG2 A:THR67 4.6 292.9 1.0
O1A A:ATP301 4.7 292.5 1.0
CE A:LYS66 5.0 284.6 1.0

Magnesium binding site 2 out of 7 in 8bd4

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Magnesium binding site 2 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:283.6
occ:1.00
 O1G B:ATP301 2.1 291.4 1.0
O1B B:ATP301 2.1 292.4 1.0
PG B:ATP301 2.4 291.3 1.0
OG1 B:THR67 2.4 293.2 1.0
O2G B:ATP301 2.4 291.1 1.0
O3B B:ATP301 2.7 291.8 1.0
PB B:ATP301 2.8 292.6 1.0
O3A B:ATP301 3.5 291.8 1.0
CB B:THR67 3.6 293.0 1.0
O2A B:ATP301 3.9 292.3 1.0
O3G B:ATP301 3.9 291.0 1.0
O2B B:ATP301 4.2 291.9 1.0
PA B:ATP301 4.2 292.8 1.0
N B:THR67 4.3 293.1 1.0
NH2 C:ARG189 4.3 263.8 1.0
OD1 B:ASP144 4.5 258.2 1.0
CA B:THR67 4.5 293.0 1.0
CG2 B:THR67 4.6 292.9 1.0
O1A B:ATP301 4.7 292.5 1.0
CE B:LYS66 5.0 284.6 1.0

Magnesium binding site 3 out of 7 in 8bd4

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Magnesium binding site 3 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg302

b:283.6
occ:1.00
 O1G C:ATP301 2.1 291.4 1.0
O1B C:ATP301 2.1 292.4 1.0
PG C:ATP301 2.4 291.3 1.0
OG1 C:THR67 2.4 293.2 1.0
O2G C:ATP301 2.4 291.1 1.0
O3B C:ATP301 2.7 291.8 1.0
PB C:ATP301 2.8 292.6 1.0
O3A C:ATP301 3.5 291.8 1.0
CB C:THR67 3.6 293.0 1.0
O2A C:ATP301 3.9 292.3 1.0
O3G C:ATP301 3.9 291.0 1.0
O2B C:ATP301 4.2 291.9 1.0
PA C:ATP301 4.2 292.8 1.0
N C:THR67 4.3 293.1 1.0
NH2 D:ARG189 4.4 263.8 1.0
OD1 C:ASP144 4.5 258.2 1.0
CA C:THR67 4.5 293.0 1.0
CG2 C:THR67 4.6 292.9 1.0
O1A C:ATP301 4.7 292.5 1.0
CE C:LYS66 5.0 284.6 1.0

Magnesium binding site 4 out of 7 in 8bd4

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Magnesium binding site 4 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg302

b:283.6
occ:1.00
 O1G D:ATP301 2.1 291.4 1.0
O1B D:ATP301 2.1 292.4 1.0
PG D:ATP301 2.4 291.3 1.0
OG1 D:THR67 2.4 293.2 1.0
O2G D:ATP301 2.4 291.1 1.0
O3B D:ATP301 2.7 291.8 1.0
PB D:ATP301 2.8 292.6 1.0
O3A D:ATP301 3.5 291.8 1.0
CB D:THR67 3.6 293.0 1.0
O2A D:ATP301 3.9 292.3 1.0
O3G D:ATP301 3.9 291.0 1.0
O2B D:ATP301 4.2 291.9 1.0
PA D:ATP301 4.2 292.8 1.0
N D:THR67 4.3 293.1 1.0
NH2 E:ARG189 4.4 263.8 1.0
OD1 D:ASP144 4.5 258.2 1.0
CA D:THR67 4.5 293.0 1.0
CG2 D:THR67 4.6 292.9 1.0
O1A D:ATP301 4.7 292.5 1.0
CE D:LYS66 5.0 284.6 1.0

Magnesium binding site 5 out of 7 in 8bd4

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Magnesium binding site 5 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg302

b:283.6
occ:1.00
 O1G E:ATP301 2.1 291.4 1.0
O1B E:ATP301 2.1 292.4 1.0
PG E:ATP301 2.4 291.3 1.0
OG1 E:THR67 2.4 293.2 1.0
O2G E:ATP301 2.4 291.1 1.0
O3B E:ATP301 2.7 291.8 1.0
PB E:ATP301 2.8 292.6 1.0
O3A E:ATP301 3.5 291.8 1.0
CB E:THR67 3.6 293.0 1.0
O2A E:ATP301 3.9 292.3 1.0
O3G E:ATP301 3.9 291.0 1.0
O2B E:ATP301 4.2 291.9 1.0
PA E:ATP301 4.2 292.8 1.0
N E:THR67 4.3 293.1 1.0
NH2 F:ARG189 4.3 263.8 1.0
OD1 E:ASP144 4.5 258.2 1.0
CA E:THR67 4.5 293.0 1.0
CG2 E:THR67 4.6 292.9 1.0
O1A E:ATP301 4.7 292.5 1.0
CE E:LYS66 5.0 284.6 1.0

Magnesium binding site 6 out of 7 in 8bd4

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Magnesium binding site 6 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg302

b:283.6
occ:1.00
 O1G F:ATP301 2.1 291.4 1.0
O1B F:ATP301 2.1 292.4 1.0
PG F:ATP301 2.4 291.3 1.0
OG1 F:THR67 2.4 293.2 1.0
O2G F:ATP301 2.4 291.1 1.0
O3B F:ATP301 2.7 291.8 1.0
PB F:ATP301 2.8 292.6 1.0
O3A F:ATP301 3.5 291.8 1.0
CB F:THR67 3.6 293.0 1.0
O2A F:ATP301 3.9 292.3 1.0
O3G F:ATP301 3.9 291.0 1.0
NH2 G:ARG189 4.2 263.8 1.0
O2B F:ATP301 4.2 291.9 1.0
PA F:ATP301 4.2 292.8 1.0
N F:THR67 4.3 293.1 1.0
OD1 F:ASP144 4.5 258.2 1.0
CA F:THR67 4.5 293.0 1.0
CG2 F:THR67 4.6 292.9 1.0
O1A F:ATP301 4.7 292.5 1.0
CE F:LYS66 5.0 284.6 1.0

Magnesium binding site 7 out of 7 in 8bd4

Go back to Magnesium Binding Sites List in 8bd4
Magnesium binding site 7 out of 7 in the Tniq-Capped Tns-Atp-Dsdna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Tniq-Capped Tns-Atp-Dsdna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg302

b:283.6
occ:1.00
 O1G G:ATP301 2.1 291.4 1.0
O1B G:ATP301 2.1 292.4 1.0
PG G:ATP301 2.4 291.3 1.0
OG1 G:THR67 2.4 293.2 1.0
O2G G:ATP301 2.4 291.1 1.0
O3B G:ATP301 2.7 291.8 1.0
PB G:ATP301 2.8 292.6 1.0
O3A G:ATP301 3.5 291.8 1.0
CB G:THR67 3.6 293.0 1.0
O2A G:ATP301 3.9 292.3 1.0
O3G G:ATP301 3.9 291.0 1.0
O2B G:ATP301 4.2 291.9 1.0
PA G:ATP301 4.2 292.8 1.0
N G:THR67 4.3 293.1 1.0
OD1 G:ASP144 4.5 258.2 1.0
CA G:THR67 4.5 293.0 1.0
CG2 G:THR67 4.6 292.9 1.0
O1A G:ATP301 4.7 292.5 1.0
CE G:LYS66 5.0 284.6 1.0

Reference:

M.Schmitz, I.Querques, S.Oberli, C.Chanez, M.Jinek. Structural Basis For the Assembly of the Type V Crispr-Associated Transposon Complex. Cell V. 185 4999 2022.
ISSN: ISSN 1097-4172
PubMed: 36435179
DOI: 10.1016/J.CELL.2022.11.009
Page generated: Thu Oct 3 19:15:22 2024

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