Atomistry » Magnesium » PDB 8b22-8be0 » 8bd5
Atomistry »
  Magnesium »
    PDB 8b22-8be0 »
      8bd5 »

Magnesium in PDB 8bd5: CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex

Other elements in 8bd5:

The structure of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex (pdb code 8bd5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex, PDB code: 8bd5:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 1 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg302

b:138.7
occ:1.00
OG1 E:THR67 2.1 132.1 1.0
O1B E:ATP301 2.1 136.9 1.0
O2A E:ATP301 2.2 136.9 1.0
O1G E:ATP301 2.2 136.9 1.0
PG E:ATP301 2.6 136.9 1.0
PB E:ATP301 2.7 136.9 1.0
O3B E:ATP301 2.7 136.9 1.0
CB E:THR67 2.8 132.1 1.0
O2G E:ATP301 2.8 136.9 1.0
PA E:ATP301 3.0 136.9 1.0
O3A E:ATP301 3.0 136.9 1.0
O1A E:ATP301 3.5 136.9 1.0
N E:THR67 3.5 132.1 1.0
CA E:THR67 3.7 132.1 1.0
OE2 E:GLU145 3.8 120.6 1.0
CG2 E:THR67 4.0 132.1 1.0
NZ E:LYS66 4.1 136.0 1.0
O3G E:ATP301 4.1 136.9 1.0
O2B E:ATP301 4.2 136.9 1.0
O5' E:ATP301 4.4 136.9 1.0
OE2 F:GLU162 4.6 112.6 1.0
N E:LYS66 4.7 136.0 1.0
C E:LYS66 4.7 136.0 1.0
OD2 E:ASP144 4.8 123.0 1.0
NH2 E:ARG63 4.8 133.4 1.0
NH2 F:ARG189 4.9 121.0 1.0
OD1 E:ASP144 4.9 123.0 1.0
C E:THR67 4.9 132.1 1.0

Magnesium binding site 2 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 2 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg302

b:128.1
occ:1.00
O1B F:ATP301 2.2 133.1 1.0
O3B F:ATP301 2.3 133.1 1.0
O1G F:ATP301 2.4 133.1 1.0
PG F:ATP301 2.6 133.1 1.0
PB F:ATP301 2.7 133.1 1.0
O2G F:ATP301 2.8 133.1 1.0
OE2 F:GLU145 3.0 111.3 1.0
CG2 F:THR67 3.0 120.5 1.0
CD F:GLU145 3.8 111.3 1.0
NH2 G:ARG189 3.8 151.5 1.0
O3A F:ATP301 3.8 133.1 1.0
O2B F:ATP301 3.9 133.1 1.0
OG1 F:THR67 3.9 120.5 1.0
O3G F:ATP301 4.1 133.1 1.0
CB F:THR67 4.1 120.5 1.0
O2A F:ATP301 4.2 133.1 1.0
OE1 F:GLU145 4.3 111.3 1.0
OD1 F:ASP144 4.3 107.5 1.0
O F:GLY65 4.4 125.4 1.0
OD2 F:ASP144 4.4 107.5 1.0
PA F:ATP301 4.7 133.1 1.0
CG F:GLU145 4.8 111.3 1.0
CG F:ASP144 4.8 107.5 1.0
N F:THR67 5.0 120.5 1.0

Magnesium binding site 3 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 3 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg302

b:234.2
occ:1.00
O1B G:ATP301 2.1 236.8 1.0
OG1 G:THR67 2.2 220.2 1.0
O3B G:ATP301 2.2 236.8 1.0
O2A G:ATP301 2.3 236.8 1.0
PB G:ATP301 2.4 236.8 1.0
O1G G:ATP301 2.5 236.8 1.0
PG G:ATP301 2.8 236.8 1.0
O3A G:ATP301 2.9 236.8 1.0
PA G:ATP301 3.1 236.8 1.0
CB G:THR67 3.2 220.2 1.0
O2G G:ATP301 3.5 236.8 1.0
N G:THR67 3.8 220.2 1.0
O2B G:ATP301 3.9 236.8 1.0
O1A G:ATP301 3.9 236.8 1.0
OE2 H:GLU162 4.0 240.1 1.0
CA G:THR67 4.1 220.2 1.0
O3G G:ATP301 4.1 236.8 1.0
CG2 G:THR67 4.3 220.2 1.0
NH2 G:ARG63 4.4 241.0 1.0
O5' G:ATP301 4.4 236.8 1.0
NH2 H:ARG189 4.5 252.3 1.0
C5' G:ATP301 4.7 236.8 1.0
CD H:GLU162 4.7 240.1 1.0
N G:LYS66 4.9 219.0 1.0
NE G:ARG63 5.0 241.0 1.0
C G:LYS66 5.0 219.0 1.0

Magnesium binding site 4 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 4 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg302

b:305.9
occ:1.00
OG1 H:THR67 2.1 294.0 1.0
O1G H:ATP301 2.2 311.1 1.0
O1B H:ATP301 2.2 311.1 1.0
O2A H:ATP301 2.2 311.1 1.0
PB H:ATP301 2.6 311.1 1.0
O3B H:ATP301 2.6 311.1 1.0
PG H:ATP301 2.7 311.1 1.0
PA H:ATP301 2.7 311.1 1.0
O3A H:ATP301 2.7 311.1 1.0
CB H:THR67 2.9 294.0 1.0
O1A H:ATP301 3.0 311.1 1.0
O2G H:ATP301 3.2 311.1 1.0
N H:THR67 3.5 294.0 1.0
CA H:THR67 3.8 294.0 1.0
CG2 H:THR67 4.1 294.0 1.0
O2B H:ATP301 4.1 311.1 1.0
O3G H:ATP301 4.1 311.1 1.0
O5' H:ATP301 4.2 311.1 1.0
N H:LYS66 4.7 295.6 1.0
NH2 I:ARG189 4.7 287.2 1.0
C H:LYS66 4.7 295.6 1.0
OE2 I:GLU162 4.8 281.2 1.0

Magnesium binding site 5 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 5 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg302

b:329.5
occ:1.00
O1B I:ATP301 2.1 329.6 1.0
O3B I:ATP301 2.2 329.6 1.0
O2A I:ATP301 2.2 329.6 1.0
O2G I:ATP301 2.4 329.6 1.0
PB I:ATP301 2.4 329.6 1.0
PG I:ATP301 2.5 329.6 1.0
OG1 I:THR67 2.7 312.3 1.0
O1G I:ATP301 2.9 329.6 1.0
O3A I:ATP301 2.9 329.6 1.0
PA I:ATP301 3.1 329.6 1.0
CB I:THR67 3.5 312.3 1.0
NH2 I:ARG63 3.8 327.6 1.0
O2B I:ATP301 3.9 329.6 1.0
N I:THR67 4.0 312.3 1.0
O3G I:ATP301 4.0 329.6 1.0
O1A I:ATP301 4.1 329.6 1.0
O5' I:ATP301 4.2 329.6 1.0
CA I:THR67 4.4 312.3 1.0
CG2 I:THR67 4.6 312.3 1.0
CZ I:ARG63 4.9 327.6 1.0
CB I:LYS66 5.0 311.1 1.0

Magnesium binding site 6 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 6 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg302

b:335.9
occ:1.00
O1B J:ATP301 2.0 336.2 1.0
OG1 J:THR67 2.0 329.3 1.0
O2A J:ATP301 2.4 336.2 1.0
PB J:ATP301 2.5 336.2 1.0
O3A J:ATP301 2.6 336.2 1.0
PA J:ATP301 2.6 336.2 1.0
O3B J:ATP301 2.8 336.2 1.0
O1A J:ATP301 2.8 336.2 1.0
CB J:THR67 3.0 329.3 1.0
N J:THR67 3.5 329.3 1.0
CA J:THR67 3.8 329.3 1.0
PG J:ATP301 3.8 336.2 1.0
O2G J:ATP301 3.9 336.2 1.0
O2B J:ATP301 4.0 336.2 1.0
O5' J:ATP301 4.2 336.2 1.0
O1G J:ATP301 4.2 336.2 1.0
CG2 J:THR67 4.2 329.3 1.0
NH2 J:ARG63 4.4 335.6 1.0
OD1 J:ASP144 4.5 308.8 1.0
C J:LYS66 4.6 332.3 1.0
N J:LYS66 4.6 332.3 1.0
CB J:LYS66 4.7 332.3 1.0
OD2 J:ASP144 4.8 308.8 1.0
CA J:LYS66 4.9 332.3 1.0

Magnesium binding site 7 out of 7 in 8bd5

Go back to Magnesium Binding Sites List in 8bd5
Magnesium binding site 7 out of 7 in the CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of CAS12K-Sgrna-Dsdna-S15-Tniq-Tnsc Transposon Recruitment Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg302

b:312.1
occ:1.00
O1B K:ATP301 2.0 314.2 1.0
O1G K:ATP301 2.0 314.2 1.0
PG K:ATP301 2.4 314.2 1.0
O3B K:ATP301 2.5 314.2 1.0
OG1 K:THR67 2.6 300.4 1.0
O2G K:ATP301 2.6 314.2 1.0
PB K:ATP301 2.6 314.2 1.0
O3A K:ATP301 3.3 314.2 1.0
CB K:THR67 3.5 300.4 1.0
O2A K:ATP301 3.6 314.2 1.0
O3G K:ATP301 3.9 314.2 1.0
O2B K:ATP301 4.0 314.2 1.0
PA K:ATP301 4.0 314.2 1.0
N K:THR67 4.3 300.4 1.0
CA K:THR67 4.5 300.4 1.0
CG2 K:THR67 4.6 300.4 1.0
O1A K:ATP301 4.6 314.2 1.0
OD1 K:ASP144 4.6 268.8 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 19:15:50 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