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:
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
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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
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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
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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
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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
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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
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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
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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: Fri Apr 7 06:33:42 2023
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