Magnesium in PDB 7uj0: Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib

Enzymatic activity of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib

All present enzymatic activity of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib:
3.4.21.92;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib (pdb code 7uj0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 9 binding sites of Magnesium where determined in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib, PDB code: 7uj0:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Magnesium binding site 1 out of 9 in 7uj0

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Magnesium binding site 1 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:130.5
occ:1.00
 HG1 A:THR221 2.0 138.6 1.0
O3B A:AGS801 2.4 135.5 1.0
S1G A:AGS801 2.5 135.5 1.0
O3A A:AGS801 2.6 135.5 1.0
OG1 A:THR221 2.6 138.6 1.0
OD2 A:ASP285 2.6 140.0 1.0
PG A:AGS801 2.8 135.5 1.0
PB A:AGS801 3.0 135.5 1.0
O2G A:AGS801 3.4 135.5 1.0
O2B A:AGS801 3.4 135.5 1.0
HH21 B:ARG339 3.5 117.5 1.0
HB A:THR221 3.6 138.6 1.0
CG A:ASP285 3.6 140.0 1.0
CB A:THR221 3.7 138.6 1.0
PA A:AGS801 3.9 135.5 1.0
OD1 A:ASP285 3.9 140.0 1.0
O2A A:AGS801 4.0 135.5 1.0
H A:THR221 4.1 138.6 1.0
HE B:ARG339 4.1 117.5 1.0
HG21 A:THR221 4.1 138.6 1.0
O3G A:AGS801 4.2 135.5 1.0
NH2 B:ARG339 4.3 117.5 1.0
O1B A:AGS801 4.3 135.5 1.0
CG2 A:THR221 4.5 138.6 1.0
O1A A:AGS801 4.6 135.5 1.0
N A:THR221 4.7 138.6 1.0
HH22 B:ARG339 4.8 117.5 1.0
CA A:THR221 4.8 138.6 1.0
NE B:ARG339 4.8 117.5 1.0
HG A:SER321 4.9 139.0 1.0
CB A:ASP285 4.9 140.0 1.0
HB2 A:LYS220 4.9 138.4 1.0
O5' A:AGS801 4.9 135.5 1.0

Magnesium binding site 2 out of 9 in 7uj0

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Magnesium binding site 2 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg804

b:127.1
occ:1.00
 HA2 A:GLY498 2.4 136.4 1.0
H A:GLY498 2.9 136.4 1.0
O1B A:ADP802 3.1 131.5 1.0
CA A:GLY498 3.3 136.4 1.0
H5'1 A:ADP802 3.4 131.5 1.0
N A:GLY498 3.4 136.4 1.0
OG1 A:THR502 3.6 154.9 1.0
H5'2 A:ADP802 3.6 131.5 1.0
O3A A:ADP802 3.7 131.5 1.0
PB A:ADP802 3.8 131.5 1.0
OE2 A:GLU503 3.8 153.4 1.0
H A:VAL499 3.9 149.1 1.0
HA3 A:GLY498 3.9 136.4 1.0
O1A A:ADP802 3.9 131.5 1.0
H A:GLY500 3.9 152.0 1.0
H A:THR502 3.9 154.9 1.0
HG1 A:THR502 3.9 154.9 1.0
C5' A:ADP802 4.0 131.5 1.0
O2B A:ADP802 4.0 131.5 1.0
C A:GLY498 4.1 136.4 1.0
HG23 A:THR502 4.2 154.9 1.0
OE1 A:GLU503 4.2 153.4 1.0
N A:VAL499 4.2 149.1 1.0
H A:LYS501 4.4 154.5 1.0
PA A:ADP802 4.4 131.5 1.0
CD A:GLU503 4.4 153.4 1.0
HB2 A:LYS501 4.6 154.5 1.0
N A:GLY500 4.7 152.0 1.0
C A:THR497 4.7 135.0 1.0
CB A:THR502 4.7 154.9 1.0
O5' A:ADP802 4.7 131.5 1.0
CG2 A:THR502 4.7 154.9 1.0
HG21 A:THR502 4.7 154.9 1.0
N A:THR502 4.8 154.9 1.0
HA A:THR497 4.9 135.0 1.0
N A:LYS501 4.9 154.5 1.0

Magnesium binding site 3 out of 9 in 7uj0

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Magnesium binding site 3 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg803

b:90.5
occ:1.00
 HG1 B:THR221 1.7 91.4 1.0
O2B B:AGS801 2.0 83.6 1.0
OG1 B:THR221 2.4 91.4 1.0
HG21 B:THR221 2.8 91.4 1.0
PB B:AGS801 3.2 83.6 1.0
HH22 C:ARG340 3.3 66.8 1.0
CB B:THR221 3.4 91.4 1.0
CG2 B:THR221 3.5 91.4 1.0
O1B B:AGS801 3.5 83.6 1.0
HB B:THR221 3.6 91.4 1.0
HH21 C:ARG340 3.6 66.8 1.0
NH2 C:ARG340 3.8 66.8 1.0
HG23 B:THR221 3.9 91.4 1.0
O3G B:AGS801 3.9 83.6 1.0
HB2 B:ASP285 4.0 99.2 1.0
OD2 B:ASP285 4.1 99.2 1.0
HG22 B:THR221 4.2 91.4 1.0
O3B B:AGS801 4.2 83.6 1.0
O3A B:AGS801 4.3 83.6 1.0
HB3 B:ASP285 4.6 99.2 1.0
HG B:SER321 4.6 97.5 1.0
CB B:ASP285 4.6 99.2 1.0
O2A B:AGS801 4.6 83.6 1.0
PG B:AGS801 4.7 83.6 1.0
CA B:THR221 4.7 91.4 1.0
H B:THR221 4.8 91.4 1.0
CG B:ASP285 4.9 99.2 1.0
HA B:THR221 4.9 91.4 1.0
PA B:AGS801 4.9 83.6 1.0
HH21 C:ARG339 5.0 71.5 1.0

Magnesium binding site 4 out of 9 in 7uj0

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Magnesium binding site 4 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg804

b:40.2
occ:1.00
 O2B B:AGS802 2.0 44.4 1.0
OG1 B:THR502 2.1 45.9 1.0
OD1 B:ASP564 2.7 48.2 1.0
HB B:THR502 3.0 45.9 1.0
OD2 B:ASP564 3.0 48.2 1.0
CB B:THR502 3.0 45.9 1.0
CG B:ASP564 3.2 48.2 1.0
HG21 B:THR502 3.3 45.9 1.0
HG1 B:THR604 3.4 47.9 1.0
PB B:AGS802 3.5 44.4 1.0
CG2 B:THR502 3.7 45.9 1.0
HH22 C:ARG643 3.8 41.2 1.0
S1G B:AGS802 3.8 44.4 1.0
O2A B:AGS802 3.8 44.4 1.0
OD2 C:ASP582 4.1 44.1 1.0
H B:THR502 4.2 45.9 1.0
O3G B:AGS802 4.2 44.4 1.0
OG1 B:THR604 4.2 47.9 1.0
HG22 B:THR502 4.3 45.9 1.0
O3A B:AGS802 4.3 44.4 1.0
HH21 C:ARG643 4.3 41.2 1.0
CA B:THR502 4.3 45.9 1.0
O1B B:AGS802 4.3 44.4 1.0
O3B B:AGS802 4.4 44.4 1.0
NH2 C:ARG643 4.4 41.2 1.0
PG B:AGS802 4.4 44.4 1.0
HG23 B:THR502 4.4 45.9 1.0
HG21 B:THR604 4.4 47.9 1.0
OE1 B:GLU565 4.5 49.5 1.0
N B:THR502 4.5 45.9 1.0
HB2 B:LYS501 4.6 44.5 1.0
PA B:AGS802 4.6 44.4 1.0
HA B:THR502 4.6 45.9 1.0
HH22 B:ARG518 4.7 45.9 1.0
CB B:ASP564 4.7 48.2 1.0
HH22 B:ARG702 4.7 44.1 1.0
HH21 B:ARG518 4.7 45.9 1.0
HB B:THR604 4.8 47.9 1.0
NH2 B:ARG518 4.9 45.9 1.0
HB2 B:ASP564 4.9 48.2 1.0
CB B:THR604 5.0 47.9 1.0

Magnesium binding site 5 out of 9 in 7uj0

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Magnesium binding site 5 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg803

b:49.7
occ:1.00
 OG1 C:THR221 2.0 51.6 1.0
O2G C:AGS801 2.1 50.4 1.0
O2B C:AGS801 2.1 50.4 1.0
CB C:THR221 3.2 51.6 1.0
HB C:THR221 3.2 51.6 1.0
O3B C:AGS801 3.2 50.4 1.0
PB C:AGS801 3.2 50.4 1.0
PG C:AGS801 3.2 50.4 1.0
H C:THR221 3.6 51.6 1.0
HH22 D:ARG340 3.6 48.1 1.0
HG21 C:THR221 3.8 51.6 1.0
OD1 C:ASP285 3.8 57.0 1.0
OD2 C:ASP285 3.9 57.0 1.0
HG C:SER321 4.0 54.1 1.0
CG2 C:THR221 4.1 51.6 1.0
O3G C:AGS801 4.1 50.4 1.0
N C:THR221 4.1 51.6 1.0
HH21 D:ARG340 4.2 48.1 1.0
NH2 D:ARG340 4.2 48.1 1.0
CA C:THR221 4.2 51.6 1.0
CG C:ASP285 4.2 57.0 1.0
HH21 D:ARG339 4.3 47.8 1.0
O3A C:AGS801 4.3 50.4 1.0
O1B C:AGS801 4.3 50.4 1.0
O2A C:AGS801 4.3 50.4 1.0
HB2 C:LYS220 4.4 50.1 1.0
HH22 D:ARG339 4.4 47.8 1.0
HE2 C:LYS220 4.5 50.1 1.0
OE2 C:GLU286 4.5 58.0 1.0
O1A C:AGS801 4.6 50.4 1.0
PA C:AGS801 4.6 50.4 1.0
HA C:THR221 4.6 51.6 1.0
HG23 C:THR221 4.6 51.6 1.0
NH2 D:ARG339 4.6 47.8 1.0
OG C:SER321 4.6 54.1 1.0
S1G C:AGS801 4.7 50.4 1.0
HG22 C:THR221 4.7 51.6 1.0

Magnesium binding site 6 out of 9 in 7uj0

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Magnesium binding site 6 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg804

b:47.9
occ:1.00
 OG1 C:THR502 2.0 41.5 1.0
O2B C:AGS802 2.3 44.0 1.0
S1G C:AGS802 2.4 44.0 1.0
HB C:THR502 2.6 41.5 1.0
CB C:THR502 2.8 41.5 1.0
O3B C:AGS802 3.3 44.0 1.0
PB C:AGS802 3.4 44.0 1.0
H C:THR502 3.4 41.5 1.0
PG C:AGS802 3.5 44.0 1.0
HG21 C:THR502 3.6 41.5 1.0
HG1 C:THR604 3.7 39.9 1.0
CG2 C:THR502 3.8 41.5 1.0
N C:THR502 3.8 41.5 1.0
HH22 D:ARG643 3.9 45.8 1.0
OE2 C:GLU565 3.9 44.0 1.0
CA C:THR502 3.9 41.5 1.0
HB2 C:LYS501 4.1 41.2 1.0
O1A C:AGS802 4.1 44.0 1.0
OD1 C:ASP564 4.1 41.2 1.0
O2A C:AGS802 4.2 44.0 1.0
HG22 C:THR502 4.3 41.5 1.0
O3A C:AGS802 4.3 44.0 1.0
PA C:AGS802 4.4 44.0 1.0
HA C:THR502 4.4 41.5 1.0
O3G C:AGS802 4.4 44.0 1.0
HG21 C:THR604 4.5 39.9 1.0
HG23 C:THR502 4.5 41.5 1.0
OG1 C:THR604 4.5 39.9 1.0
NH2 D:ARG643 4.6 45.8 1.0
O1B C:AGS802 4.6 44.0 1.0
O2G C:AGS802 4.7 44.0 1.0
HH21 C:ARG702 4.7 47.9 1.0
HB3 C:LYS501 4.7 41.2 1.0
CG C:ASP564 4.7 41.2 1.0
HB C:THR604 4.7 39.9 1.0
HH21 D:ARG643 4.7 45.8 1.0
C C:LYS501 4.8 41.2 1.0
CB C:LYS501 4.8 41.2 1.0
HH22 C:ARG518 4.9 40.4 1.0
HH21 C:ARG518 5.0 40.4 1.0
HB3 C:ASP564 5.0 41.2 1.0

Magnesium binding site 7 out of 9 in 7uj0

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Magnesium binding site 7 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg803

b:46.4
occ:1.00
 OG1 D:THR221 2.0 44.5 1.0
O1B D:AGS801 2.0 47.4 1.0
O2B D:AGS801 2.3 47.4 1.0
PB D:AGS801 2.4 47.4 1.0
S1G D:AGS801 3.1 47.4 1.0
O3B D:AGS801 3.2 47.4 1.0
CB D:THR221 3.3 44.5 1.0
HH22 E:ARG340 3.4 48.2 1.0
HB D:THR221 3.5 44.5 1.0
OD2 D:ASP285 3.5 49.9 1.0
PG D:AGS801 3.5 47.4 1.0
HG22 D:THR221 3.5 44.5 1.0
OD1 D:ASP285 3.6 49.9 1.0
OE2 D:GLU286 3.6 50.9 1.0
O3G D:AGS801 3.7 47.4 1.0
HG D:SER321 3.8 45.5 1.0
O3A D:AGS801 3.9 47.4 1.0
CG2 D:THR221 3.9 44.5 1.0
CG D:ASP285 4.0 49.9 1.0
NH2 E:ARG340 4.0 48.2 1.0
H D:THR221 4.0 44.5 1.0
HH22 E:ARG339 4.1 47.9 1.0
HH21 E:ARG340 4.2 48.2 1.0
HH21 E:ARG339 4.4 47.9 1.0
HG21 D:THR221 4.4 44.5 1.0
CA D:THR221 4.4 44.5 1.0
HB2 D:LYS220 4.4 44.3 1.0
N D:THR221 4.4 44.5 1.0
OG D:SER321 4.5 45.5 1.0
NH2 E:ARG339 4.6 47.9 1.0
HE2 D:LYS220 4.6 44.3 1.0
HA D:THR221 4.6 44.5 1.0
O2A D:AGS801 4.7 47.4 1.0
O5' D:AGS801 4.7 47.4 1.0
HG23 D:THR221 4.7 44.5 1.0
CD D:GLU286 4.7 50.9 1.0
HZ1 D:LYS220 4.8 44.3 1.0
PA D:AGS801 4.8 47.4 1.0
HH12 E:ARG340 4.9 48.2 1.0
O2G D:AGS801 5.0 47.4 1.0

Magnesium binding site 8 out of 9 in 7uj0

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Magnesium binding site 8 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg804

b:53.4
occ:1.00
 O2B D:AGS802 2.0 59.3 1.0
O3G D:AGS802 2.1 59.3 1.0
OG1 D:THR502 2.2 51.1 1.0
HB D:THR502 3.2 51.1 1.0
CB D:THR502 3.2 51.1 1.0
PB D:AGS802 3.3 59.3 1.0
PG D:AGS802 3.4 59.3 1.0
O3B D:AGS802 3.5 59.3 1.0
HG21 D:THR502 3.8 51.1 1.0
HH22 E:ARG643 3.8 65.2 1.0
HG1 D:THR604 4.0 50.2 1.0
H D:THR502 4.0 51.1 1.0
HB2 D:LYS501 4.1 53.5 1.0
O3A D:AGS802 4.1 59.3 1.0
HE3 D:LYS501 4.1 53.5 1.0
CG2 D:THR502 4.1 51.1 1.0
O2G D:AGS802 4.2 59.3 1.0
OG1 D:THR604 4.2 50.2 1.0
N D:THR502 4.3 51.1 1.0
CA D:THR502 4.4 51.1 1.0
O2A D:AGS802 4.4 59.3 1.0
HB D:THR604 4.4 50.2 1.0
O1B D:AGS802 4.5 59.3 1.0
OD1 E:ASP582 4.5 69.2 1.0
NH2 E:ARG643 4.5 65.2 1.0
HB3 D:ASP564 4.5 51.8 1.0
OD1 D:ASP564 4.6 51.8 1.0
HG21 D:THR604 4.6 50.2 1.0
HH21 E:ARG643 4.6 65.2 1.0
HG22 D:THR502 4.7 51.1 1.0
CG D:ASP564 4.7 51.8 1.0
HA D:THR502 4.7 51.1 1.0
HG23 D:THR502 4.8 51.1 1.0
S1G D:AGS802 4.8 59.3 1.0
HH21 D:ARG702 4.8 65.7 1.0
CB D:THR604 4.8 50.2 1.0
HH21 D:ARG518 4.9 49.0 1.0
PA D:AGS802 4.9 59.3 1.0
OE1 D:GLU565 5.0 56.6 1.0
CB D:LYS501 5.0 53.5 1.0
OD2 D:ASP564 5.0 51.8 1.0

Magnesium binding site 9 out of 9 in 7uj0

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Magnesium binding site 9 out of 9 in the Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Clpap Complex Bound to Clps N-Terminal Extension, Class Iiib within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg803

b:57.0
occ:1.00
 OG1 E:THR221 2.0 55.3 1.0
O1B E:ADP801 2.1 59.0 1.0
O1A E:ADP801 2.3 59.0 1.0
PB E:ADP801 3.3 59.0 1.0
PA E:ADP801 3.3 59.0 1.0
CB E:THR221 3.3 55.3 1.0
O3A E:ADP801 3.4 59.0 1.0
HB E:THR221 3.5 55.3 1.0
H E:THR221 3.7 55.3 1.0
OD1 E:ASP285 3.8 56.7 1.0
HG21 E:THR221 3.9 55.3 1.0
OD2 E:ASP285 4.0 56.7 1.0
O2B E:ADP801 4.0 59.0 1.0
O2A E:ADP801 4.0 59.0 1.0
CG2 E:THR221 4.2 55.3 1.0
HG E:SER321 4.2 53.0 1.0
N E:THR221 4.2 55.3 1.0
OE2 E:GLU286 4.3 59.2 1.0
HB2 E:LYS220 4.3 55.8 1.0
CG E:ASP285 4.3 56.7 1.0
CA E:THR221 4.3 55.3 1.0
HE3 E:LYS220 4.4 55.8 1.0
O3B E:ADP801 4.5 59.0 1.0
HG23 E:THR221 4.5 55.3 1.0
HH22 F:ARG339 4.5 87.9 1.0
NH2 F:ARG339 4.6 87.9 1.0
HA E:THR221 4.6 55.3 1.0
O5' E:ADP801 4.7 59.0 1.0
CZ F:ARG339 4.8 87.9 1.0
HH21 F:ARG339 4.8 87.9 1.0
HH12 F:ARG339 4.9 87.9 1.0
OG E:SER321 5.0 53.0 1.0
NH1 F:ARG339 5.0 87.9 1.0
HG22 E:THR221 5.0 55.3 1.0

Reference:

S.Kim, X.Fei, R.T.Sauer, T.A.Baker. Aaa+ Protease-Adaptor Structures Reveal Altered Conformations and Ring Specialization. Nat.Struct.Mol.Biol. V. 29 1068 2022.
ISSN: ESSN 1545-9985
PubMed: 36329286
DOI: 10.1038/S41594-022-00850-3
Page generated: Thu Apr 6 23:49:24 2023

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