Magnesium in PDB 6jd1: Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Enzymatic activity of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
All present enzymatic activity of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5:
1.1.1.86;
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
30;
Page 4, Binding sites: 31 -
36;
Binding sites:
The binding sites of Magnesium atom in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
(pdb code 6jd1). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 36 binding sites of Magnesium where determined in the
Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5, PDB code: 6jd1:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 36 in 6jd1
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Magnesium Binding Sites List in 6jd1
Magnesium binding site 1 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg401
b:80.7
occ:1.00
|
O06
|
A:9TY405
|
2.0
|
86.6
|
1.0
|
OD2
|
A:ASP191
|
2.1
|
79.7
|
1.0
|
CG
|
A:ASP191
|
2.4
|
79.7
|
1.0
|
OD1
|
A:ASP191
|
2.5
|
79.7
|
1.0
|
OE2
|
A:GLU195
|
2.5
|
73.5
|
1.0
|
HD23
|
A:LEU192
|
2.7
|
73.9
|
1.0
|
OE1
|
A:GLU195
|
2.8
|
73.5
|
1.0
|
CD
|
A:GLU195
|
3.0
|
73.5
|
1.0
|
O
|
A:ASP191
|
3.0
|
79.7
|
1.0
|
C04
|
A:9TY405
|
3.3
|
86.6
|
1.0
|
C
|
A:ASP191
|
3.4
|
79.7
|
1.0
|
CD2
|
A:LEU192
|
3.5
|
73.9
|
1.0
|
HD21
|
A:LEU192
|
3.5
|
73.9
|
1.0
|
CB
|
A:ASP191
|
3.6
|
79.7
|
1.0
|
HA
|
A:LEU192
|
3.6
|
73.9
|
1.0
|
HB3
|
A:ASP191
|
3.7
|
79.7
|
1.0
|
HG
|
A:LEU192
|
3.8
|
73.9
|
1.0
|
OG
|
B:SER257
|
3.9
|
75.1
|
1.0
|
N
|
A:LEU192
|
3.9
|
73.9
|
1.0
|
HG
|
B:SER257
|
4.0
|
75.1
|
1.0
|
C03
|
A:9TY405
|
4.1
|
86.6
|
1.0
|
CA
|
A:ASP191
|
4.1
|
79.7
|
1.0
|
H1
|
A:9TY405
|
4.1
|
86.6
|
1.0
|
CG
|
A:LEU192
|
4.1
|
73.9
|
1.0
|
O05
|
A:9TY405
|
4.2
|
86.6
|
1.0
|
HD22
|
A:LEU192
|
4.2
|
73.9
|
1.0
|
CA
|
A:LEU192
|
4.2
|
73.9
|
1.0
|
O01
|
A:9TY405
|
4.3
|
86.6
|
1.0
|
HB2
|
A:ASP191
|
4.3
|
79.7
|
1.0
|
C07
|
A:9TY405
|
4.4
|
86.6
|
1.0
|
H
|
A:LEU192
|
4.4
|
73.9
|
1.0
|
CG
|
A:GLU195
|
4.4
|
73.5
|
1.0
|
HA
|
A:ASP191
|
4.5
|
79.7
|
1.0
|
C02
|
A:9TY405
|
4.6
|
86.6
|
1.0
|
HB2
|
A:GLU195
|
4.7
|
73.5
|
1.0
|
HG3
|
A:GLU195
|
4.7
|
73.5
|
1.0
|
CB
|
A:LEU192
|
4.8
|
73.9
|
1.0
|
HA
|
B:SER257
|
4.8
|
75.1
|
1.0
|
H2
|
A:9TY405
|
4.9
|
86.6
|
1.0
|
MG
|
A:MG402
|
4.9
|
82.5
|
1.0
|
CB
|
B:SER257
|
5.0
|
75.1
|
1.0
|
|
Magnesium binding site 2 out
of 36 in 6jd1
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Magnesium Binding Sites List in 6jd1
Magnesium binding site 2 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg402
b:82.5
occ:1.00
|
H2
|
A:9TY405
|
1.9
|
86.6
|
1.0
|
O09
|
A:9TY405
|
2.1
|
86.6
|
1.0
|
C02
|
A:9TY405
|
2.3
|
86.6
|
1.0
|
OD1
|
A:ASP191
|
2.5
|
79.7
|
1.0
|
C07
|
A:9TY405
|
2.6
|
86.6
|
1.0
|
C03
|
A:9TY405
|
2.9
|
86.6
|
1.0
|
HH21
|
A:ARG130
|
2.9
|
90.7
|
1.0
|
O01
|
A:9TY405
|
3.0
|
86.6
|
1.0
|
OE1
|
B:GLU227
|
3.2
|
80.9
|
1.0
|
CG
|
A:ASP191
|
3.3
|
79.7
|
1.0
|
H1
|
A:9TY405
|
3.3
|
86.6
|
1.0
|
HH22
|
A:ARG130
|
3.4
|
90.7
|
1.0
|
NH2
|
A:ARG130
|
3.5
|
90.7
|
1.0
|
HA
|
A:ASP191
|
3.5
|
79.7
|
1.0
|
H4
|
A:9TY405
|
3.5
|
86.6
|
1.0
|
C08
|
A:9TY405
|
3.5
|
86.6
|
1.0
|
HB2
|
A:ASP191
|
3.6
|
79.7
|
1.0
|
OE2
|
B:GLU233
|
3.7
|
87.2
|
1.0
|
CB
|
A:ASP191
|
3.9
|
79.7
|
1.0
|
CD
|
B:GLU227
|
4.0
|
80.9
|
1.0
|
OE2
|
B:GLU227
|
4.0
|
80.9
|
1.0
|
C04
|
A:9TY405
|
4.1
|
86.6
|
1.0
|
OD2
|
A:ASP191
|
4.2
|
79.7
|
1.0
|
CA
|
A:ASP191
|
4.2
|
79.7
|
1.0
|
O06
|
A:9TY405
|
4.3
|
86.6
|
1.0
|
H3
|
A:9TY405
|
4.4
|
86.6
|
1.0
|
CD
|
B:GLU233
|
4.5
|
87.2
|
1.0
|
O
|
A:ASP191
|
4.5
|
79.7
|
1.0
|
OE2
|
A:GLU195
|
4.5
|
73.5
|
1.0
|
OE1
|
B:GLU233
|
4.6
|
87.2
|
1.0
|
CZ
|
A:ARG130
|
4.7
|
90.7
|
1.0
|
HB3
|
A:ASP191
|
4.8
|
79.7
|
1.0
|
HE
|
A:ARG130
|
4.8
|
90.7
|
1.0
|
C
|
A:ASP191
|
4.8
|
79.7
|
1.0
|
MG
|
A:MG401
|
4.9
|
80.7
|
1.0
|
|
Magnesium binding site 3 out
of 36 in 6jd1
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Magnesium Binding Sites List in 6jd1
Magnesium binding site 3 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg403
b:89.7
occ:1.00
|
H62A
|
A:NAI404
|
2.9
|
97.5
|
1.0
|
C5A
|
A:NAI404
|
2.9
|
97.5
|
1.0
|
N7A
|
A:NAI404
|
3.0
|
97.5
|
1.0
|
C6A
|
A:NAI404
|
3.1
|
97.5
|
1.0
|
N6A
|
A:NAI404
|
3.4
|
97.5
|
1.0
|
C4A
|
A:NAI404
|
3.7
|
97.5
|
1.0
|
C8A
|
A:NAI404
|
3.7
|
97.5
|
1.0
|
N1A
|
A:NAI404
|
3.9
|
97.5
|
1.0
|
H8A
|
A:NAI404
|
4.1
|
97.5
|
1.0
|
N9A
|
A:NAI404
|
4.1
|
97.5
|
1.0
|
H61A
|
A:NAI404
|
4.2
|
97.5
|
1.0
|
N3A
|
A:NAI404
|
4.4
|
97.5
|
1.0
|
C2A
|
A:NAI404
|
4.5
|
97.5
|
1.0
|
HG11
|
A:VAL82
|
4.5
|
89.5
|
1.0
|
H2B
|
A:NAI404
|
4.6
|
97.5
|
1.0
|
HG11
|
A:VAL46
|
4.6
|
0.6
|
1.0
|
|
Magnesium binding site 4 out
of 36 in 6jd1
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Magnesium Binding Sites List in 6jd1
Magnesium binding site 4 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg401
b:82.3
occ:1.00
|
O05
|
B:9TY405
|
2.0
|
88.8
|
1.0
|
OD2
|
B:ASP191
|
2.2
|
80.5
|
1.0
|
CG
|
B:ASP191
|
2.4
|
80.5
|
1.0
|
HD23
|
B:LEU192
|
2.4
|
74.4
|
1.0
|
OD1
|
B:ASP191
|
2.6
|
80.5
|
1.0
|
OE2
|
B:GLU195
|
2.7
|
73.5
|
1.0
|
O
|
B:ASP191
|
2.8
|
80.5
|
1.0
|
OE1
|
B:GLU195
|
2.9
|
73.5
|
1.0
|
CD
|
B:GLU195
|
3.1
|
73.5
|
1.0
|
C
|
B:ASP191
|
3.2
|
80.5
|
1.0
|
C04
|
B:9TY405
|
3.2
|
88.8
|
1.0
|
CD2
|
B:LEU192
|
3.2
|
74.4
|
1.0
|
HD21
|
B:LEU192
|
3.4
|
74.4
|
1.0
|
CB
|
B:ASP191
|
3.4
|
80.5
|
1.0
|
HB3
|
B:ASP191
|
3.5
|
80.5
|
1.0
|
HA
|
B:LEU192
|
3.5
|
74.4
|
1.0
|
N
|
B:LEU192
|
3.7
|
74.4
|
1.0
|
HG
|
B:LEU192
|
3.8
|
74.4
|
1.0
|
CA
|
B:ASP191
|
3.9
|
80.5
|
1.0
|
HD22
|
B:LEU192
|
3.9
|
74.4
|
1.0
|
C03
|
B:9TY405
|
4.1
|
88.8
|
1.0
|
CG
|
B:LEU192
|
4.1
|
74.4
|
1.0
|
CA
|
B:LEU192
|
4.1
|
74.4
|
1.0
|
H1
|
B:9TY405
|
4.1
|
88.8
|
1.0
|
O06
|
B:9TY405
|
4.1
|
88.8
|
1.0
|
OG
|
A:SER257
|
4.2
|
75.9
|
1.0
|
HG
|
A:SER257
|
4.2
|
75.9
|
1.0
|
HB2
|
B:ASP191
|
4.2
|
80.5
|
1.0
|
HA
|
B:ASP191
|
4.3
|
80.5
|
1.0
|
H
|
B:LEU192
|
4.3
|
74.4
|
1.0
|
O09
|
B:9TY405
|
4.4
|
88.8
|
1.0
|
C07
|
B:9TY405
|
4.4
|
88.8
|
1.0
|
CG
|
B:GLU195
|
4.6
|
73.5
|
1.0
|
C02
|
B:9TY405
|
4.6
|
88.8
|
1.0
|
CB
|
B:LEU192
|
4.6
|
74.4
|
1.0
|
HB2
|
B:GLU195
|
4.7
|
73.5
|
1.0
|
MG
|
B:MG402
|
4.7
|
87.8
|
1.0
|
HG3
|
B:GLU195
|
4.8
|
73.5
|
1.0
|
H2
|
B:9TY405
|
4.9
|
88.8
|
1.0
|
HG
|
B:SER107
|
4.9
|
87.9
|
1.0
|
|
Magnesium binding site 5 out
of 36 in 6jd1
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Magnesium Binding Sites List in 6jd1
Magnesium binding site 5 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg402
b:87.8
occ:1.00
|
H2
|
B:9TY405
|
1.9
|
88.8
|
1.0
|
O01
|
B:9TY405
|
2.1
|
88.8
|
1.0
|
OD1
|
B:ASP191
|
2.3
|
80.5
|
1.0
|
C02
|
B:9TY405
|
2.3
|
88.8
|
1.0
|
C07
|
B:9TY405
|
2.6
|
88.8
|
1.0
|
HH21
|
B:ARG130
|
2.7
|
92.8
|
1.0
|
HH22
|
B:ARG130
|
2.8
|
92.8
|
1.0
|
C03
|
B:9TY405
|
2.9
|
88.8
|
1.0
|
NH2
|
B:ARG130
|
3.0
|
92.8
|
1.0
|
O09
|
B:9TY405
|
3.0
|
88.8
|
1.0
|
OE1
|
A:GLU227
|
3.1
|
84.2
|
1.0
|
CG
|
B:ASP191
|
3.2
|
80.5
|
1.0
|
H1
|
B:9TY405
|
3.3
|
88.8
|
1.0
|
HA
|
B:ASP191
|
3.5
|
80.5
|
1.0
|
C08
|
B:9TY405
|
3.6
|
88.8
|
1.0
|
H4
|
B:9TY405
|
3.6
|
88.8
|
1.0
|
HB2
|
B:ASP191
|
3.7
|
80.5
|
1.0
|
CB
|
B:ASP191
|
3.9
|
80.5
|
1.0
|
CD
|
A:GLU227
|
4.0
|
84.2
|
1.0
|
OD2
|
B:ASP191
|
4.0
|
80.5
|
1.0
|
C04
|
B:9TY405
|
4.1
|
88.8
|
1.0
|
OE2
|
A:GLU227
|
4.1
|
84.2
|
1.0
|
CZ
|
B:ARG130
|
4.2
|
92.8
|
1.0
|
CA
|
B:ASP191
|
4.2
|
80.5
|
1.0
|
O05
|
B:9TY405
|
4.2
|
88.8
|
1.0
|
OE2
|
B:GLU195
|
4.4
|
73.5
|
1.0
|
O
|
B:ASP191
|
4.4
|
80.5
|
1.0
|
H3
|
B:9TY405
|
4.5
|
88.8
|
1.0
|
HE
|
B:ARG130
|
4.7
|
92.8
|
1.0
|
MG
|
B:MG401
|
4.7
|
82.3
|
1.0
|
HB3
|
B:ASP191
|
4.8
|
80.5
|
1.0
|
HH12
|
B:ARG130
|
4.8
|
92.8
|
1.0
|
C
|
B:ASP191
|
4.8
|
80.5
|
1.0
|
NE
|
B:ARG130
|
4.9
|
92.8
|
1.0
|
OE1
|
A:GLU233
|
4.9
|
92.8
|
1.0
|
NH1
|
B:ARG130
|
4.9
|
92.8
|
1.0
|
|
Magnesium binding site 6 out
of 36 in 6jd1
Go back to
Magnesium Binding Sites List in 6jd1
Magnesium binding site 6 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg403
b:90.7
occ:1.00
|
H62A
|
B:NAI404
|
2.8
|
0.2
|
1.0
|
C6A
|
B:NAI404
|
3.1
|
0.2
|
1.0
|
C5A
|
B:NAI404
|
3.1
|
0.2
|
1.0
|
N6A
|
B:NAI404
|
3.2
|
0.2
|
1.0
|
N7A
|
B:NAI404
|
3.3
|
0.2
|
1.0
|
N1A
|
B:NAI404
|
3.8
|
0.2
|
1.0
|
C4A
|
B:NAI404
|
3.8
|
0.2
|
1.0
|
H61A
|
B:NAI404
|
4.0
|
0.2
|
1.0
|
C8A
|
B:NAI404
|
4.1
|
0.2
|
1.0
|
C2A
|
B:NAI404
|
4.4
|
0.2
|
1.0
|
N9A
|
B:NAI404
|
4.4
|
0.2
|
1.0
|
N3A
|
B:NAI404
|
4.4
|
0.2
|
1.0
|
H8A
|
B:NAI404
|
4.5
|
0.2
|
1.0
|
HG21
|
B:VAL82
|
4.5
|
91.7
|
1.0
|
H2B
|
B:NAI404
|
4.9
|
0.2
|
1.0
|
|
Magnesium binding site 7 out
of 36 in 6jd1
Go back to
Magnesium Binding Sites List in 6jd1
Magnesium binding site 7 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg401
b:85.7
occ:1.00
|
HD23
|
C:LEU192
|
1.9
|
75.0
|
1.0
|
O06
|
C:9TY405
|
2.0
|
89.3
|
1.0
|
OD2
|
C:ASP191
|
2.2
|
81.6
|
1.0
|
CG
|
C:ASP191
|
2.4
|
81.6
|
1.0
|
OD1
|
C:ASP191
|
2.7
|
81.6
|
1.0
|
OE2
|
C:GLU195
|
2.7
|
73.7
|
1.0
|
O
|
C:ASP191
|
2.7
|
81.6
|
1.0
|
CD2
|
C:LEU192
|
2.8
|
75.0
|
1.0
|
HD21
|
C:LEU192
|
2.9
|
75.0
|
1.0
|
OE1
|
C:GLU195
|
3.1
|
73.7
|
1.0
|
C
|
C:ASP191
|
3.1
|
81.6
|
1.0
|
HD22
|
C:LEU192
|
3.1
|
75.0
|
1.0
|
CD
|
C:GLU195
|
3.2
|
73.7
|
1.0
|
C04
|
C:9TY405
|
3.2
|
89.3
|
1.0
|
HB3
|
C:ASP191
|
3.3
|
81.6
|
1.0
|
CB
|
C:ASP191
|
3.3
|
81.6
|
1.0
|
HA
|
C:LEU192
|
3.5
|
75.0
|
1.0
|
N
|
C:LEU192
|
3.7
|
75.0
|
1.0
|
CA
|
C:ASP191
|
3.8
|
81.6
|
1.0
|
CG
|
C:LEU192
|
4.0
|
75.0
|
1.0
|
HG
|
C:LEU192
|
4.0
|
75.0
|
1.0
|
C03
|
C:9TY405
|
4.0
|
89.3
|
1.0
|
CA
|
C:LEU192
|
4.1
|
75.0
|
1.0
|
OG
|
D:SER257
|
4.1
|
76.3
|
1.0
|
O05
|
C:9TY405
|
4.1
|
89.3
|
1.0
|
HG
|
D:SER257
|
4.1
|
76.3
|
1.0
|
H1
|
C:9TY405
|
4.1
|
89.3
|
1.0
|
HB2
|
C:ASP191
|
4.2
|
81.6
|
1.0
|
O01
|
C:9TY405
|
4.2
|
89.3
|
1.0
|
HA
|
C:ASP191
|
4.2
|
81.6
|
1.0
|
H
|
C:LEU192
|
4.2
|
75.0
|
1.0
|
C07
|
C:9TY405
|
4.4
|
89.3
|
1.0
|
C02
|
C:9TY405
|
4.5
|
89.3
|
1.0
|
CB
|
C:LEU192
|
4.6
|
75.0
|
1.0
|
CG
|
C:GLU195
|
4.6
|
73.7
|
1.0
|
MG
|
C:MG402
|
4.7
|
80.9
|
1.0
|
HG
|
C:SER107
|
4.8
|
87.8
|
1.0
|
HB2
|
C:GLU195
|
4.8
|
73.7
|
1.0
|
H2
|
C:9TY405
|
4.8
|
89.3
|
1.0
|
HG3
|
C:GLU195
|
4.8
|
73.7
|
1.0
|
HB3
|
C:LEU192
|
4.9
|
75.0
|
1.0
|
|
Magnesium binding site 8 out
of 36 in 6jd1
Go back to
Magnesium Binding Sites List in 6jd1
Magnesium binding site 8 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg402
b:80.9
occ:1.00
|
H2
|
C:9TY405
|
1.9
|
89.3
|
1.0
|
O09
|
C:9TY405
|
2.1
|
89.3
|
1.0
|
OD1
|
C:ASP191
|
2.2
|
81.6
|
1.0
|
C02
|
C:9TY405
|
2.3
|
89.3
|
1.0
|
HH11
|
C:ARG130
|
2.4
|
90.9
|
1.0
|
HH12
|
C:ARG130
|
2.6
|
90.9
|
1.0
|
C07
|
C:9TY405
|
2.6
|
89.3
|
1.0
|
NH1
|
C:ARG130
|
2.8
|
90.9
|
1.0
|
C03
|
C:9TY405
|
2.9
|
89.3
|
1.0
|
O01
|
C:9TY405
|
3.0
|
89.3
|
1.0
|
OE1
|
D:GLU227
|
3.1
|
82.9
|
1.0
|
CG
|
C:ASP191
|
3.2
|
81.6
|
1.0
|
H1
|
C:9TY405
|
3.3
|
89.3
|
1.0
|
C08
|
C:9TY405
|
3.5
|
89.3
|
1.0
|
H4
|
C:9TY405
|
3.6
|
89.3
|
1.0
|
HA
|
C:ASP191
|
3.6
|
81.6
|
1.0
|
HB2
|
C:ASP191
|
3.9
|
81.6
|
1.0
|
OD2
|
C:ASP191
|
3.9
|
81.6
|
1.0
|
CB
|
C:ASP191
|
4.0
|
81.6
|
1.0
|
CD
|
D:GLU227
|
4.0
|
82.9
|
1.0
|
C04
|
C:9TY405
|
4.1
|
89.3
|
1.0
|
CZ
|
C:ARG130
|
4.1
|
90.9
|
1.0
|
OE2
|
D:GLU227
|
4.2
|
82.9
|
1.0
|
CA
|
C:ASP191
|
4.3
|
81.6
|
1.0
|
O06
|
C:9TY405
|
4.3
|
89.3
|
1.0
|
O
|
C:ASP191
|
4.4
|
81.6
|
1.0
|
H3
|
C:9TY405
|
4.4
|
89.3
|
1.0
|
HE
|
C:ARG130
|
4.6
|
90.9
|
1.0
|
OE2
|
D:GLU233
|
4.7
|
91.0
|
1.0
|
MG
|
C:MG401
|
4.7
|
85.7
|
1.0
|
OE2
|
C:GLU195
|
4.7
|
73.7
|
1.0
|
NE
|
C:ARG130
|
4.8
|
90.9
|
1.0
|
C
|
C:ASP191
|
4.8
|
81.6
|
1.0
|
HH22
|
C:ARG130
|
4.8
|
90.9
|
1.0
|
HB3
|
C:ASP191
|
4.9
|
81.6
|
1.0
|
NH2
|
C:ARG130
|
5.0
|
90.9
|
1.0
|
|
Magnesium binding site 9 out
of 36 in 6jd1
Go back to
Magnesium Binding Sites List in 6jd1
Magnesium binding site 9 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg403
b:0.6
occ:1.00
|
H62A
|
C:NAI404
|
1.9
|
98.8
|
1.0
|
N6A
|
C:NAI404
|
2.2
|
98.8
|
1.0
|
C6A
|
C:NAI404
|
2.3
|
98.8
|
1.0
|
C5A
|
C:NAI404
|
2.9
|
98.8
|
1.0
|
N1A
|
C:NAI404
|
2.9
|
98.8
|
1.0
|
H61A
|
C:NAI404
|
2.9
|
98.8
|
1.0
|
N7A
|
C:NAI404
|
3.4
|
98.8
|
1.0
|
C4A
|
C:NAI404
|
3.8
|
98.8
|
1.0
|
HG21
|
C:VAL46
|
3.8
|
0.5
|
1.0
|
C2A
|
C:NAI404
|
3.8
|
98.8
|
1.0
|
N3A
|
C:NAI404
|
4.2
|
98.8
|
1.0
|
C8A
|
C:NAI404
|
4.4
|
98.8
|
1.0
|
H2A
|
C:NAI404
|
4.5
|
98.8
|
1.0
|
N9A
|
C:NAI404
|
4.6
|
98.8
|
1.0
|
CG2
|
C:VAL46
|
4.7
|
0.5
|
1.0
|
HG23
|
C:VAL46
|
4.9
|
0.5
|
1.0
|
H8A
|
C:NAI404
|
4.9
|
98.8
|
1.0
|
|
Magnesium binding site 10 out
of 36 in 6jd1
Go back to
Magnesium Binding Sites List in 6jd1
Magnesium binding site 10 out
of 36 in the Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Cryo-Em Structure of Sulfolobus Solfataricus Ketol-Acid Reductoisomerase (Sso-Kari) in Complex with MG2+, Nadh, and Cpd at PH7.5 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg401
b:82.2
occ:1.00
|
O06
|
D:9TY405
|
2.0
|
88.2
|
1.0
|
OD2
|
D:ASP191
|
2.1
|
81.1
|
1.0
|
CG
|
D:ASP191
|
2.4
|
81.1
|
1.0
|
OD1
|
D:ASP191
|
2.5
|
81.1
|
1.0
|
OE2
|
D:GLU195
|
2.7
|
73.6
|
1.0
|
HD23
|
D:LEU192
|
2.7
|
74.2
|
1.0
|
OE1
|
D:GLU195
|
2.7
|
73.6
|
1.0
|
O
|
D:ASP191
|
2.9
|
81.1
|
1.0
|
CD
|
D:GLU195
|
3.0
|
73.6
|
1.0
|
C04
|
D:9TY405
|
3.2
|
88.2
|
1.0
|
C
|
D:ASP191
|
3.3
|
81.1
|
1.0
|
CB
|
D:ASP191
|
3.5
|
81.1
|
1.0
|
HB3
|
D:ASP191
|
3.5
|
81.1
|
1.0
|
CD2
|
D:LEU192
|
3.6
|
74.2
|
1.0
|
HA
|
D:LEU192
|
3.6
|
74.2
|
1.0
|
HD21
|
D:LEU192
|
3.6
|
74.2
|
1.0
|
HG
|
D:LEU192
|
3.7
|
74.2
|
1.0
|
N
|
D:LEU192
|
3.8
|
74.2
|
1.0
|
OG
|
C:SER257
|
3.9
|
75.3
|
1.0
|
CA
|
D:ASP191
|
4.0
|
81.1
|
1.0
|
C03
|
D:9TY405
|
4.0
|
88.2
|
1.0
|
H2
|
D:9TY405
|
4.1
|
88.2
|
1.0
|
O05
|
D:9TY405
|
4.1
|
88.2
|
1.0
|
CG
|
D:LEU192
|
4.2
|
74.2
|
1.0
|
CA
|
D:LEU192
|
4.2
|
74.2
|
1.0
|
HG
|
C:SER257
|
4.2
|
75.3
|
1.0
|
HB2
|
D:ASP191
|
4.3
|
81.1
|
1.0
|
HD22
|
D:LEU192
|
4.3
|
74.2
|
1.0
|
O01
|
D:9TY405
|
4.3
|
88.2
|
1.0
|
HA
|
D:ASP191
|
4.3
|
81.1
|
1.0
|
H
|
D:LEU192
|
4.4
|
74.2
|
1.0
|
C07
|
D:9TY405
|
4.4
|
88.2
|
1.0
|
CG
|
D:GLU195
|
4.5
|
73.6
|
1.0
|
C02
|
D:9TY405
|
4.6
|
88.2
|
1.0
|
HB2
|
D:GLU195
|
4.6
|
73.6
|
1.0
|
HG
|
D:SER107
|
4.7
|
88.8
|
1.0
|
HA
|
C:SER257
|
4.8
|
75.3
|
1.0
|
CB
|
D:LEU192
|
4.8
|
74.2
|
1.0
|
MG
|
D:MG402
|
4.8
|
83.3
|
1.0
|
HG3
|
D:GLU195
|
4.8
|
73.6
|
1.0
|
H1
|
D:9TY405
|
4.9
|
88.2
|
1.0
|
CB
|
C:SER257
|
5.0
|
75.3
|
1.0
|
HB3
|
C:SER257
|
5.0
|
75.3
|
1.0
|
|
Reference:
C.Y.Chen,
Y.C.Chang,
B.L.Lin,
K.F.Lin,
C.H.Huang,
D.L.Hsieh,
T.P.Ko,
M.D.Tsai.
Use of Cryo-Em to Uncover Structural Bases of pH Effect and Cofactor Bispecificity of Ketol-Acid Reductoisomerase. J. Am. Chem. Soc. V. 141 6136 2019.
ISSN: ESSN 1520-5126
PubMed: 30921515
DOI: 10.1021/JACS.9B01354
Page generated: Tue Oct 1 04:49:54 2024
|