Magnesium in PDB 8zi3: Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Enzymatic activity of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
All present enzymatic activity of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4:
7.1.2.2;
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
(pdb code 8zi3). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the
Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4, PDB code: 8zi3:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
Magnesium binding site 1 out
of 5 in 8zi3
Go back to
Magnesium Binding Sites List in 8zi3
Magnesium binding site 1 out
of 5 in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg602
b:80.5
occ:1.00
|
OG1
|
B:THR177
|
2.2
|
88.5
|
1.0
|
O2B
|
B:ATP601
|
2.2
|
100.4
|
1.0
|
O1G
|
B:ATP601
|
2.4
|
107.5
|
1.0
|
PG
|
B:ATP601
|
3.4
|
101.2
|
1.0
|
CB
|
B:THR177
|
3.4
|
77.4
|
1.0
|
PB
|
B:ATP601
|
3.5
|
90.1
|
1.0
|
O2G
|
B:ATP601
|
3.5
|
88.3
|
1.0
|
O3B
|
B:ATP601
|
3.6
|
92.0
|
1.0
|
O1A
|
B:ATP601
|
3.7
|
100.5
|
1.0
|
CG2
|
B:THR177
|
4.2
|
75.2
|
1.0
|
NE2
|
B:GLN201
|
4.3
|
96.5
|
1.0
|
OD1
|
B:ASP262
|
4.4
|
100.6
|
1.0
|
N
|
B:THR177
|
4.4
|
72.8
|
1.0
|
O1B
|
B:ATP601
|
4.5
|
92.0
|
1.0
|
O3A
|
B:ATP601
|
4.5
|
86.6
|
1.0
|
CA
|
B:THR177
|
4.5
|
72.0
|
1.0
|
PA
|
B:ATP601
|
4.6
|
94.5
|
1.0
|
O3G
|
B:ATP601
|
4.8
|
94.7
|
1.0
|
|
Magnesium binding site 2 out
of 5 in 8zi3
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Magnesium Binding Sites List in 8zi3
Magnesium binding site 2 out
of 5 in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg601
b:87.5
occ:1.00
|
O2B
|
C:ATP602
|
1.8
|
94.6
|
1.0
|
OG1
|
C:THR177
|
2.2
|
83.2
|
1.0
|
O2G
|
C:ATP602
|
2.3
|
98.8
|
1.0
|
O3G
|
C:ATP602
|
3.0
|
97.8
|
1.0
|
PG
|
C:ATP602
|
3.1
|
109.8
|
1.0
|
PB
|
C:ATP602
|
3.1
|
88.4
|
1.0
|
CB
|
C:THR177
|
3.2
|
66.6
|
1.0
|
O1A
|
C:ATP602
|
3.4
|
98.1
|
1.0
|
O3B
|
C:ATP602
|
3.4
|
94.4
|
1.0
|
CG2
|
C:THR177
|
4.1
|
65.8
|
1.0
|
O3A
|
C:ATP602
|
4.2
|
89.4
|
1.0
|
O1B
|
C:ATP602
|
4.2
|
90.3
|
1.0
|
PA
|
C:ATP602
|
4.4
|
99.0
|
1.0
|
N
|
C:THR177
|
4.4
|
70.8
|
1.0
|
CA
|
C:THR177
|
4.4
|
63.4
|
1.0
|
O1G
|
C:ATP602
|
4.5
|
96.5
|
1.0
|
OD1
|
C:ASP262
|
4.6
|
89.0
|
1.0
|
OD2
|
C:ASP262
|
4.9
|
98.7
|
1.0
|
|
Magnesium binding site 3 out
of 5 in 8zi3
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Magnesium Binding Sites List in 8zi3
Magnesium binding site 3 out
of 5 in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg502
b:109.9
occ:1.00
|
O3B
|
D:ADP501
|
2.2
|
117.1
|
1.0
|
O2B
|
D:ADP501
|
2.5
|
109.5
|
1.0
|
PB
|
D:ADP501
|
2.5
|
118.9
|
1.0
|
NZ
|
D:LYS154
|
2.9
|
88.7
|
1.0
|
O1B
|
D:ADP501
|
3.1
|
111.7
|
1.0
|
CE
|
D:LYS154
|
3.5
|
89.6
|
1.0
|
CB
|
D:LYS154
|
4.0
|
83.9
|
1.0
|
O3A
|
D:ADP501
|
4.0
|
106.9
|
1.0
|
O
|
D:GLY149
|
4.1
|
109.6
|
1.0
|
OG1
|
D:THR155
|
4.2
|
107.8
|
1.0
|
N
|
D:GLY151
|
4.3
|
102.3
|
1.0
|
CG
|
D:LYS154
|
4.3
|
91.3
|
1.0
|
NH1
|
C:ARG377
|
4.5
|
109.9
|
1.0
|
CD
|
D:LYS154
|
4.6
|
87.7
|
1.0
|
N
|
D:LYS154
|
4.7
|
90.5
|
1.0
|
N
|
D:THR155
|
4.8
|
103.8
|
1.0
|
CA
|
D:ALA150
|
4.8
|
103.5
|
1.0
|
NH2
|
C:ARG377
|
4.8
|
111.0
|
1.0
|
CZ
|
C:ARG377
|
4.9
|
113.6
|
1.0
|
CA
|
D:LYS154
|
4.9
|
84.3
|
1.0
|
|
Magnesium binding site 4 out
of 5 in 8zi3
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Magnesium Binding Sites List in 8zi3
Magnesium binding site 4 out
of 5 in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg501
b:134.3
occ:1.00
|
OG1
|
E:THR155
|
2.6
|
93.9
|
1.0
|
O1
|
E:PO4503
|
2.9
|
30.0
|
1.0
|
OE1
|
E:GLU180
|
3.0
|
115.3
|
1.0
|
O2
|
E:PO4503
|
3.1
|
30.0
|
1.0
|
O3B
|
E:ADP502
|
3.2
|
20.0
|
1.0
|
P
|
E:PO4503
|
3.4
|
30.0
|
1.0
|
CD
|
E:GLU180
|
3.4
|
113.9
|
1.0
|
OE2
|
E:GLU180
|
3.5
|
108.3
|
1.0
|
O4
|
E:PO4503
|
3.6
|
30.0
|
1.0
|
CB
|
E:THR155
|
4.0
|
79.9
|
1.0
|
ND2
|
E:ASN248
|
4.1
|
96.6
|
1.0
|
NH2
|
E:ARG181
|
4.2
|
103.8
|
1.0
|
PB
|
E:ADP502
|
4.4
|
20.0
|
1.0
|
N
|
E:THR155
|
4.4
|
82.5
|
1.0
|
CE
|
E:LYS154
|
4.4
|
72.2
|
1.0
|
CG
|
E:GLU180
|
4.5
|
106.4
|
1.0
|
O2B
|
E:ADP502
|
4.6
|
20.0
|
1.0
|
CA
|
E:THR155
|
4.6
|
75.4
|
1.0
|
CB
|
E:LYS154
|
4.7
|
78.4
|
1.0
|
NZ
|
E:LYS154
|
4.8
|
69.1
|
1.0
|
CG2
|
E:THR155
|
4.8
|
87.8
|
1.0
|
O2A
|
E:ADP502
|
4.8
|
20.0
|
1.0
|
O3
|
E:PO4503
|
4.8
|
30.0
|
1.0
|
OD1
|
E:ASP247
|
5.0
|
108.9
|
1.0
|
|
Magnesium binding site 5 out
of 5 in 8zi3
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Magnesium Binding Sites List in 8zi3
Magnesium binding site 5 out
of 5 in the Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F1- Atpase Rotary Subunits Gamma and Epsilon and Novel Compound Targets - Conformation 4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg601
b:77.7
occ:1.00
|
O2B
|
A:ATP602
|
2.0
|
109.5
|
1.0
|
O2G
|
A:ATP602
|
2.1
|
109.6
|
1.0
|
OG1
|
A:THR177
|
2.1
|
99.0
|
1.0
|
PG
|
A:ATP602
|
3.2
|
109.9
|
1.0
|
PB
|
A:ATP602
|
3.3
|
103.0
|
1.0
|
O3B
|
A:ATP602
|
3.4
|
98.5
|
1.0
|
CB
|
A:THR177
|
3.4
|
84.5
|
1.0
|
O1G
|
A:ATP602
|
3.9
|
109.9
|
1.0
|
OD1
|
A:ASP262
|
4.0
|
98.0
|
1.0
|
NE2
|
A:GLN201
|
4.1
|
93.8
|
1.0
|
O1B
|
A:ATP602
|
4.1
|
101.4
|
1.0
|
O1A
|
A:ATP602
|
4.2
|
107.9
|
1.0
|
CG2
|
A:THR177
|
4.2
|
79.5
|
1.0
|
N
|
A:THR177
|
4.3
|
77.9
|
1.0
|
O3A
|
A:ATP602
|
4.4
|
110.0
|
1.0
|
O3G
|
A:ATP602
|
4.5
|
107.9
|
1.0
|
CA
|
A:THR177
|
4.5
|
76.4
|
1.0
|
PA
|
A:ATP602
|
4.9
|
112.5
|
1.0
|
CG
|
A:ASP262
|
5.0
|
95.9
|
1.0
|
|
Reference:
K.C.M.Le,
C.F.Wong,
V.Muller,
G.Gruber.
Cryo-Em Reveals Transition States of the Acinetobacter Baumannii F 1 -Atpase Rotary Subunits Gamma and Epsilon , Unveiling Novel Compound Targets. Faseb J. V. 38 70131 2024.
ISSN: ESSN 1530-6860
PubMed: 39467208
DOI: 10.1096/FJ.202401629R
Page generated: Wed Nov 27 18:53:02 2024
|