Magnesium in PDB 7xbk: Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb (pdb code 7xbk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb, PDB code: 7xbk:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 7xbk

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Magnesium binding site 1 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg701

b:10.9
occ:1.00
 OG1 B:THR358 2.1 17.1 1.0
O3B A:ATP701 2.5 21.7 1.0
O3A A:ATP701 2.7 21.7 1.0
CB B:THR358 2.8 17.1 1.0
PB A:ATP701 3.2 21.7 1.0
O3G A:ATP701 3.4 21.7 1.0
PG A:ATP701 3.5 21.7 1.0
CG2 B:THR358 3.5 17.1 1.0
OD2 A:ASP442 3.5 22.3 1.0
O2B A:ATP701 3.6 21.7 1.0
NE2 B:GLN425 3.7 13.3 1.0
PA A:ATP701 3.9 21.7 1.0
O1A A:ATP701 4.1 21.7 1.0
CA B:THR358 4.1 17.1 1.0
O1G A:ATP701 4.2 21.7 1.0
NH2 A:ARG531 4.2 22.8 1.0
N B:THR358 4.3 17.1 1.0
O2A A:ATP701 4.3 21.7 1.0
OD1 B:ASP424 4.5 8.7 1.0
O1B A:ATP701 4.5 21.7 1.0
CG2 B:THR464 4.6 8.0 1.0
CG B:ASP424 4.6 8.7 1.0
NH2 B:ARG590 4.7 22.3 1.0
O2G A:ATP701 4.7 21.7 1.0
CG A:ASP442 4.7 22.3 1.0
NH2 B:ARG378 4.8 10.1 1.0
OD2 B:ASP424 4.9 8.7 1.0
CD B:GLN425 4.9 13.3 1.0

Magnesium binding site 2 out of 8 in 7xbk

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Magnesium binding site 2 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg701

b:7.0
occ:1.00
 O3G C:ATP702 2.1 12.9 1.0
OG1 C:THR358 2.1 7.8 1.0
O2G C:ATP702 2.7 12.9 1.0
PG C:ATP702 2.9 12.9 1.0
O2B C:ATP702 2.9 12.9 1.0
CB C:THR358 3.2 7.8 1.0
O3B C:ATP702 3.4 12.9 1.0
PB C:ATP702 3.6 12.9 1.0
OD1 C:ASP424 3.6 8.8 1.0
NE2 C:GLN425 3.6 7.6 1.0
O3A C:ATP702 3.7 12.9 1.0
NH2 B:ARG531 3.8 7.3 1.0
OD2 C:ASP424 4.0 8.8 1.0
CG2 C:THR358 4.1 7.8 1.0
O1G C:ATP702 4.2 12.9 1.0
CG C:ASP424 4.2 8.8 1.0
O1A C:ATP702 4.2 12.9 1.0
N C:THR358 4.3 7.8 1.0
CA C:THR358 4.3 7.8 1.0
PA C:ATP702 4.4 12.9 1.0
O2A C:ATP702 4.6 12.9 1.0
CD C:GLN425 4.7 7.6 1.0
OG1 C:THR464 4.7 15.2 1.0
OD2 B:ASP442 4.8 7.5 1.0

Magnesium binding site 3 out of 8 in 7xbk

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Magnesium binding site 3 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg701

b:20.3
occ:1.00
 O3G D:ATP702 2.1 30.1 1.0
O3B D:ATP702 2.1 30.1 1.0
OG1 D:THR358 2.2 18.0 1.0
O2B D:ATP702 2.6 30.1 1.0
PG D:ATP702 2.6 30.1 1.0
PB D:ATP702 2.9 30.1 1.0
O1A D:ATP702 3.3 30.1 1.0
CB D:THR358 3.3 18.0 1.0
O2G D:ATP702 3.3 30.1 1.0
O3A D:ATP702 3.6 30.1 1.0
NH2 C:ARG531 3.8 12.2 1.0
PA D:ATP702 3.8 30.1 1.0
O1G D:ATP702 3.9 30.1 1.0
N D:THR358 4.0 18.0 1.0
O2A D:ATP702 4.1 30.1 1.0
O1B D:ATP702 4.2 30.1 1.0
CG2 D:THR358 4.3 18.0 1.0
CA D:THR358 4.3 18.0 1.0
OD1 D:ASP424 4.3 18.8 1.0
NE2 D:GLN425 4.5 11.0 1.0
NH2 D:ARG590 4.6 13.5 1.0
NZ D:LYS357 4.7 22.0 1.0
CZ C:ARG531 4.8 12.2 1.0
CE D:LYS357 4.9 22.0 1.0
NH1 D:ARG590 4.9 13.5 1.0
OG1 D:THR464 5.0 10.3 1.0

Magnesium binding site 4 out of 8 in 7xbk

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Magnesium binding site 4 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg701

b:15.9
occ:1.00
 O3G E:ATP702 2.1 30.1 1.0
OG1 E:THR358 2.1 16.8 1.0
CB E:THR358 3.3 16.8 1.0
NE2 E:GLN425 3.5 10.1 1.0
PG E:ATP702 3.5 30.1 1.0
CG2 E:THR358 3.6 16.8 1.0
CG E:ASP424 3.9 30.1 1.0
OD2 D:ASP442 3.9 14.8 1.0
OD1 E:ASP424 4.0 30.1 1.0
O2G E:ATP702 4.0 30.1 1.0
OD2 E:ASP424 4.2 30.1 1.0
CB E:ASP424 4.2 30.1 1.0
O1G E:ATP702 4.3 30.1 1.0
CG2 E:THR464 4.3 14.6 1.0
O3A E:ATP702 4.5 30.1 1.0
O3B E:ATP702 4.5 30.1 1.0
CA E:THR358 4.5 16.8 1.0
CD E:GLN425 4.5 10.1 1.0
NH2 D:ARG531 4.7 8.8 1.0
CG E:GLN425 4.7 10.1 1.0
O2B E:ATP702 4.7 30.1 1.0
NH2 E:ARG378 4.8 10.4 1.0
NH1 D:ARG531 4.8 8.8 1.0
N E:THR358 4.8 16.8 1.0
PB E:ATP702 5.0 30.1 1.0
CG D:ASP442 5.0 14.8 1.0
CB E:THR464 5.0 14.6 1.0

Magnesium binding site 5 out of 8 in 7xbk

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Magnesium binding site 5 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg701

b:18.8
occ:1.00
 O3G F:ATP702 2.1 15.2 1.0
O3A F:ATP702 2.2 15.2 1.0
O2B F:ATP702 2.3 15.2 1.0
OG1 F:THR358 2.4 12.1 1.0
PB F:ATP702 2.5 15.2 1.0
O3B F:ATP702 2.5 15.2 1.0
PG F:ATP702 2.8 15.2 1.0
CB F:THR358 3.3 12.1 1.0
O2G F:ATP702 3.4 15.2 1.0
PA F:ATP702 3.5 15.2 1.0
N F:THR358 3.8 12.1 1.0
O1A F:ATP702 3.9 15.2 1.0
O1B F:ATP702 3.9 15.2 1.0
NH2 E:ARG531 4.0 8.7 1.0
O2A F:ATP702 4.0 15.2 1.0
NH2 F:ARG590 4.1 12.6 1.0
O1G F:ATP702 4.1 15.2 1.0
CA F:THR358 4.2 12.1 1.0
CG2 F:THR358 4.5 12.1 1.0
NE2 F:GLN425 4.6 6.6 1.0
OD1 F:ASP424 4.6 7.1 1.0
OD2 F:ASP424 4.7 7.1 1.0
O5' F:ATP702 4.7 15.2 1.0
N F:LYS357 4.8 14.4 1.0
OD2 E:ASP442 4.8 11.5 1.0
C F:LYS357 4.9 14.4 1.0
CB F:LYS357 4.9 14.4 1.0

Magnesium binding site 6 out of 8 in 7xbk

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Magnesium binding site 6 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg701

b:28.2
occ:1.00
 O5' G:ATP702 2.1 21.1 1.0
O1B G:ATP702 2.2 21.1 1.0
O2A G:ATP702 2.4 21.1 1.0
PA G:ATP702 2.5 21.1 1.0
PB G:ATP702 2.5 21.1 1.0
O3A G:ATP702 2.5 21.1 1.0
CA G:GLY356 2.6 14.4 1.0
O2B G:ATP702 2.8 21.1 1.0
N G:GLY356 3.0 14.4 1.0
C G:GLY356 3.2 14.4 1.0
C5' G:ATP702 3.5 21.1 1.0
C8 G:ATP702 3.6 21.1 1.0
N G:LYS357 3.6 17.1 1.0
CB G:GLU359 3.7 22.1 1.0
N G:GLU359 3.7 22.1 1.0
O G:GLY356 3.9 14.4 1.0
O1A G:ATP702 3.9 21.1 1.0
N7 G:ATP702 4.0 21.1 1.0
O3B G:ATP702 4.0 21.1 1.0
C3' G:ATP702 4.1 21.1 1.0
C G:ILE355 4.1 18.2 1.0
N G:THR358 4.1 16.6 1.0
C4' G:ATP702 4.3 21.1 1.0
CA G:GLU359 4.3 22.1 1.0
N9 G:ATP702 4.6 21.1 1.0
N G:ILE355 4.6 18.2 1.0
C G:THR358 4.7 16.6 1.0
O4' G:ATP702 4.7 21.1 1.0
O G:ILE355 4.7 18.2 1.0
CB G:THR358 4.7 16.6 1.0
CA G:LYS357 4.7 17.1 1.0
C G:LYS357 4.7 17.1 1.0
CA G:THR358 4.7 16.6 1.0
O3' G:ATP702 4.9 21.1 1.0
C G:GLY354 4.9 21.5 1.0
CG G:GLU359 4.9 22.1 1.0

Magnesium binding site 7 out of 8 in 7xbk

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Magnesium binding site 7 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg701

b:32.3
occ:1.00
 O3G H:ATP702 2.1 40.6 1.0
OG1 H:THR358 2.2 31.2 1.0
OE1 H:GLN425 2.8 25.9 1.0
CB H:THR358 3.2 31.2 1.0
CD H:GLN425 3.5 25.9 1.0
PG H:ATP702 3.6 40.6 1.0
CG2 H:THR358 3.7 31.2 1.0
NE2 H:GLN425 3.8 25.9 1.0
OG1 H:THR464 4.0 23.6 1.0
NH2 G:ARG531 4.0 24.8 1.0
O1G H:ATP702 4.1 40.6 1.0
OD2 G:ASP442 4.1 21.7 1.0
CB H:ASP424 4.3 25.2 1.0
O2G H:ATP702 4.4 40.6 1.0
O3A H:ATP702 4.4 40.6 1.0
CA H:THR358 4.5 31.2 1.0
O3B H:ATP702 4.5 40.6 1.0
CG H:GLN425 4.6 25.9 1.0
OD2 H:ASP424 4.7 25.2 1.0
O1A H:ATP702 4.7 40.6 1.0
N H:THR358 4.7 31.2 1.0
NH2 H:ARG378 4.8 24.2 1.0
N H:GLN425 4.9 25.9 1.0
CG H:ASP424 5.0 25.2 1.0
CB H:THR464 5.0 23.6 1.0

Magnesium binding site 8 out of 8 in 7xbk

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Magnesium binding site 8 out of 8 in the Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg701

b:47.6
occ:1.00
 O2B H:ATP703 2.1 66.9 1.0
O3G H:ATP703 2.1 66.9 1.0
O3B H:ATP703 2.2 66.9 1.0
OG1 I:THR358 2.4 67.6 1.0
PG H:ATP703 2.6 66.9 1.0
PB H:ATP703 2.6 66.9 1.0
CB I:THR358 3.3 67.6 1.0
O1G H:ATP703 3.3 66.9 1.0
O3A H:ATP703 3.4 66.9 1.0
O1A H:ATP703 3.5 66.9 1.0
OD1 H:ASP442 3.7 55.5 1.0
N I:THR358 3.8 67.6 1.0
O2G H:ATP703 3.9 66.9 1.0
NH2 H:ARG531 3.9 48.4 1.0
O1B H:ATP703 3.9 66.9 1.0
PA H:ATP703 4.0 66.9 1.0
CA I:THR358 4.1 67.6 1.0
CE I:LYS357 4.4 60.1 1.0
CG2 I:THR358 4.4 67.6 1.0
OD1 I:ASP424 4.6 62.5 1.0
NZ I:LYS357 4.6 60.1 1.0
O5' H:ATP703 4.7 66.9 1.0
N I:LYS357 4.7 60.1 1.0
NH1 H:ARG531 4.8 48.4 1.0
CZ H:ARG531 4.8 48.4 1.0
CG H:ASP442 4.9 55.5 1.0
C I:LYS357 4.9 60.1 1.0

Reference:

D.Wu, Y.Liu, Y.Dai, G.Wang, G.Lu, Y.Chen, N.Li, J.Lin, N.Gao. Structure and Mechanism of A Mitochondrial Aaa+ Disaggregase Clpb To Be Published.
Page generated: Fri Apr 7 02:43:12 2023

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