Magnesium in PDB 8qxt: Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation

Enzymatic activity of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation

All present enzymatic activity of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation:
5.6.1.7;

Other elements in 8qxt:

The structure of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation also contains other interesting chemical elements:

Fluorine (F) 21 atoms
Potassium (K) 14 atoms

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Magnesium atom in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation (pdb code 8qxt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 14 binding sites of Magnesium where determined in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation, PDB code: 8qxt:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 14 in 8qxt

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Magnesium binding site 1 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1601

b:15.4
occ:1.00
 O A:HOH2001 1.9 13.4 1.0
O A:HOH2002 1.9 11.7 1.0
OD2 A:ASP87 1.9 16.8 1.0
F1 A:BEF1602 2.5 16.3 1.0
OD1 A:ASP87 2.5 16.8 1.0
CG A:ASP87 2.5 16.8 1.0
O1B A:ADP1600 2.6 16.4 1.0
O2A A:ADP1600 2.9 16.4 1.0
PB A:ADP1600 3.7 16.4 1.0
O3B A:ADP1600 3.9 16.4 1.0
BE A:BEF1602 3.9 16.3 1.0
CB A:ASP87 4.0 16.8 1.0
PA A:ADP1600 4.1 16.4 1.0
F2 A:BEF1602 4.2 16.3 1.0
N A:GLY88 4.3 13.5 1.0
O3A A:ADP1600 4.3 16.4 1.0
O A:SER151 4.4 17.7 1.0
OD1 A:ASP398 4.5 22.5 1.0
CG A:ASP398 4.5 22.5 1.0
CA A:ASP87 4.7 16.8 1.0
CA A:SER151 4.8 17.7 1.0
CB A:SER151 4.8 17.7 1.0
CB A:ASP398 4.8 22.5 1.0
OD2 A:ASP398 4.8 22.5 1.0
O A:HOH2005 4.9 18.6 1.0
F3 A:BEF1602 5.0 16.3 1.0

Magnesium binding site 2 out of 14 in 8qxt

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Magnesium binding site 2 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1601

b:18.7
occ:1.00
 O B:HOH2001 1.8 15.2 1.0
O B:HOH2003 1.8 12.6 1.0
OD1 B:ASP87 1.9 17.5 1.0
F1 B:BEF1602 2.4 16.4 1.0
CG B:ASP87 2.5 17.5 1.0
OD2 B:ASP87 2.6 17.5 1.0
O1B B:ADP1600 2.8 14.5 1.0
O2A B:ADP1600 3.1 14.5 1.0
O3B B:ADP1600 3.5 14.5 1.0
PB B:ADP1600 3.7 14.5 1.0
BE B:BEF1602 3.7 16.4 1.0
CB B:ASP87 4.0 17.5 1.0
F2 B:BEF1602 4.0 16.4 1.0
OD1 B:ASP398 4.2 20.7 1.0
CG B:ASP398 4.2 20.7 1.0
N B:GLY88 4.3 14.6 1.0
PA B:ADP1600 4.3 14.5 1.0
O B:HOH2005 4.3 19.0 1.0
O3A B:ADP1600 4.4 14.5 1.0
OD2 B:ASP398 4.5 20.7 1.0
CA B:ASP87 4.5 17.5 1.0
O B:SER151 4.5 18.1 1.0
CB B:ASP398 4.6 20.7 1.0
OG B:SER151 4.8 18.1 1.0
F3 B:BEF1602 4.8 16.4 1.0
C B:ASP87 4.9 17.5 1.0

Magnesium binding site 3 out of 14 in 8qxt

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Magnesium binding site 3 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1601

b:22.6
occ:1.00
 O C:HOH2001 1.8 26.2 1.0
O C:HOH2004 1.9 14.2 1.0
OD2 C:ASP87 2.0 20.6 1.0
F1 C:BEF1602 2.0 24.5 1.0
O1B C:ADP1600 2.6 37.9 1.0
CG C:ASP87 2.9 20.6 1.0
O2A C:ADP1600 3.0 37.9 1.0
OD1 C:ASP87 3.1 20.6 1.0
BE C:BEF1602 3.4 24.5 1.0
PB C:ADP1600 3.6 37.9 1.0
O3B C:ADP1600 3.7 37.9 1.0
F2 C:BEF1602 3.8 24.5 1.0
PA C:ADP1600 4.1 37.9 1.0
O3A C:ADP1600 4.2 37.9 1.0
CB C:ASP87 4.3 20.6 1.0
CG C:ASP398 4.3 24.3 1.0
O C:HOH2005 4.4 21.6 1.0
OD2 C:ASP398 4.4 24.3 1.0
O C:SER151 4.4 20.6 1.0
N C:GLY88 4.4 16.6 1.0
F3 C:BEF1602 4.4 24.5 1.0
CB C:ASP398 4.6 24.3 1.0
OD1 C:ASP398 4.6 24.3 1.0
CA C:ASP87 4.7 20.6 1.0
O C:HOH2003 4.9 22.8 1.0
O2B C:ADP1600 4.9 37.9 1.0
O1A C:ADP1600 4.9 37.9 1.0

Magnesium binding site 4 out of 14 in 8qxt

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Magnesium binding site 4 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1601

b:16.4
occ:1.00
 O D:HOH2001 1.8 12.4 1.0
O D:HOH2003 1.9 12.7 1.0
OD1 D:ASP87 2.0 15.9 1.0
OD2 D:ASP87 2.1 15.9 1.0
CG D:ASP87 2.3 15.9 1.0
F1 D:BEF1602 2.7 14.1 1.0
O1B D:ADP1600 2.7 15.0 1.0
O2A D:ADP1600 3.1 15.0 1.0
CB D:ASP87 3.8 15.9 1.0
PB D:ADP1600 3.9 15.0 1.0
O3B D:ADP1600 4.0 15.0 1.0
BE D:BEF1602 4.0 14.1 1.0
N D:GLY88 4.3 12.4 1.0
F2 D:BEF1602 4.3 14.1 1.0
O D:SER151 4.4 19.6 1.0
PA D:ADP1600 4.4 15.0 1.0
CA D:ASP87 4.5 15.9 1.0
O3A D:ADP1600 4.6 15.0 1.0
CB D:SER151 4.6 19.6 1.0
O D:HOH2006 4.7 16.9 1.0
CB D:ASP398 4.7 22.2 1.0
CA D:SER151 4.7 19.6 1.0
OG D:SER151 4.8 19.6 1.0
CG D:ASP398 4.8 22.2 1.0
C D:ASP87 4.9 15.9 1.0
OD2 D:ASP398 5.0 22.2 1.0

Magnesium binding site 5 out of 14 in 8qxt

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Magnesium binding site 5 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1601

b:15.7
occ:1.00
 O E:HOH2004 1.9 12.6 1.0
O E:HOH2001 1.9 11.9 1.0
OD2 E:ASP87 2.0 16.3 1.0
OD1 E:ASP87 2.0 16.3 1.0
CG E:ASP87 2.3 16.3 1.0
O1B E:ADP1600 2.6 16.8 1.0
F1 E:BEF1602 2.7 17.7 1.0
O2A E:ADP1600 3.4 16.8 1.0
CB E:ASP87 3.7 16.3 1.0
PB E:ADP1600 3.8 16.8 1.0
O3B E:ADP1600 3.9 16.8 1.0
BE E:BEF1602 4.0 17.7 1.0
N E:GLY88 4.2 12.5 1.0
F2 E:BEF1602 4.3 17.7 1.0
CA E:ASP87 4.4 16.3 1.0
CG E:ASP398 4.5 20.5 1.0
O E:SER151 4.5 17.6 1.0
PA E:ADP1600 4.6 16.8 1.0
OD2 E:ASP398 4.6 20.5 1.0
OD1 E:ASP398 4.6 20.5 1.0
O3A E:ADP1600 4.6 16.8 1.0
CB E:SER151 4.7 17.6 1.0
CB E:ASP398 4.8 20.5 1.0
C E:ASP87 4.8 16.3 1.0
CA E:SER151 4.8 17.6 1.0
OG E:SER151 4.8 17.6 1.0
O E:HOH2005 4.9 15.7 1.0
O2B E:ADP1600 5.0 16.8 1.0

Magnesium binding site 6 out of 14 in 8qxt

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Magnesium binding site 6 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg1601

b:24.0
occ:1.00
 O F:HOH1702 1.9 19.6 1.0
O F:HOH1701 1.9 19.8 1.0
OD2 F:ASP87 2.0 22.5 1.0
OD1 F:ASP87 2.0 22.5 1.0
CG F:ASP87 2.3 22.5 1.0
O1B F:ADP1600 2.3 37.9 1.0
F1 F:BEF1602 2.6 27.7 1.0
O2A F:ADP1600 3.4 37.9 1.0
PB F:ADP1600 3.7 37.9 1.0
CB F:ASP87 3.7 22.5 1.0
BE F:BEF1602 3.9 27.7 1.0
O3B F:ADP1600 4.0 37.9 1.0
N F:GLY88 4.1 18.2 1.0
F2 F:BEF1602 4.3 27.7 1.0
CA F:ASP87 4.4 22.5 1.0
CG F:ASP398 4.4 22.5 1.0
OD1 F:ASP398 4.5 22.5 1.0
O3A F:ADP1600 4.5 37.9 1.0
PA F:ADP1600 4.5 37.9 1.0
O F:SER151 4.6 19.3 1.0
OD2 F:ASP398 4.7 22.5 1.0
O2B F:ADP1600 4.7 37.9 1.0
CB F:ASP398 4.7 22.5 1.0
CB F:SER151 4.8 19.3 1.0
C F:ASP87 4.8 22.5 1.0
OG F:SER151 4.8 19.3 1.0
O F:HOH1705 4.9 19.8 1.0
CA F:SER151 4.9 19.3 1.0

Magnesium binding site 7 out of 14 in 8qxt

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Magnesium binding site 7 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg1601

b:18.4
occ:1.00
 O G:HOH2001 1.9 15.3 1.0
O G:HOH2004 1.9 11.9 1.0
F1 G:BEF1602 2.0 21.6 1.0
OD2 G:ASP87 2.3 17.6 1.0
O1B G:ADP1600 2.5 18.5 1.0
O2A G:ADP1600 3.0 18.5 1.0
CG G:ASP87 3.0 17.6 1.0
OD1 G:ASP87 3.1 17.6 1.0
BE G:BEF1602 3.3 21.6 1.0
O3B G:ADP1600 3.4 18.5 1.0
PB G:ADP1600 3.5 18.5 1.0
F2 G:BEF1602 3.6 21.6 1.0
O G:HOH2005 3.9 19.2 1.0
PA G:ADP1600 4.1 18.5 1.0
O3A G:ADP1600 4.1 18.5 1.0
N G:GLY88 4.3 15.7 1.0
CB G:ASP87 4.4 17.6 1.0
OD2 G:ASP398 4.4 21.9 1.0
CG G:ASP398 4.4 21.9 1.0
F3 G:BEF1602 4.4 21.6 1.0
CB G:ASP398 4.5 21.9 1.0
O G:SER151 4.6 19.4 1.0
CA G:ASP87 4.7 17.6 1.0
O G:HOH2002 4.8 18.5 1.0
OD1 G:ASP398 4.8 21.9 1.0
O2B G:ADP1600 4.8 18.5 1.0
O1A G:ADP1600 5.0 18.5 1.0

Magnesium binding site 8 out of 14 in 8qxt

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Magnesium binding site 8 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg602

b:43.9
occ:1.00
 O H:HOH702 2.0 40.6 1.0
O H:HOH703 2.0 41.2 1.0
O H:HOH701 2.0 37.9 1.0
OD1 H:ASP87 2.1 37.8 1.0
O2A H:ADP601 2.7 37.9 1.0
O1B H:ADP601 2.9 37.9 1.0
CG H:ASP87 3.1 37.8 1.0
O2B H:ADP601 3.3 37.9 1.0
OD2 H:ASP87 3.3 37.8 1.0
PB H:ADP601 3.6 37.9 1.0
PA H:ADP601 4.0 37.9 1.0
O3A H:ADP601 4.3 37.9 1.0
CB H:ASP87 4.4 37.8 1.0
C5' H:ADP601 5.0 37.9 1.0
O1A H:ADP601 5.0 37.9 1.0
N H:GLY88 5.0 28.0 1.0

Magnesium binding site 9 out of 14 in 8qxt

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Magnesium binding site 9 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg602

b:38.5
occ:1.00
 O I:HOH702 1.9 36.8 1.0
O I:HOH703 2.0 42.9 1.0
O I:HOH701 2.1 35.1 1.0
OD1 I:ASP87 2.2 36.8 1.0
OD2 I:ASP87 2.7 36.8 1.0
CG I:ASP87 2.7 36.8 1.0
O2A I:ADP601 2.8 37.9 1.0
O1B I:ADP601 3.0 37.9 1.0
O2B I:ADP601 3.1 37.9 1.0
PB I:ADP601 3.6 37.9 1.0
PA I:ADP601 4.0 37.9 1.0
CB I:ASP87 4.2 36.8 1.0
O3A I:ADP601 4.3 37.9 1.0
N I:GLY88 4.7 28.7 1.0
CA I:ASP87 4.8 36.8 1.0
O3B I:ADP601 4.9 37.9 1.0
O1A I:ADP601 5.0 37.9 1.0

Magnesium binding site 10 out of 14 in 8qxt

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Magnesium binding site 10 out of 14 in the Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryoem Structure of A GROEL14-GROES7 Complex in Presence of Adp-Befx with Narrow GROEL7 Trans Ring Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg602

b:36.9
occ:1.00
 O J:HOH801 1.9 32.5 1.0
O J:HOH802 2.0 30.2 1.0
O J:HOH803 2.0 40.1 1.0
OD1 J:ASP87 2.2 36.4 1.0
OD2 J:ASP87 2.7 36.4 1.0
CG J:ASP87 2.8 36.4 1.0
O2A J:ADP601 2.8 33.7 1.0
O2B J:ADP601 2.9 33.7 1.0
O1B J:ADP601 3.0 33.7 1.0
PB J:ADP601 3.5 33.7 1.0
PA J:ADP601 4.1 33.7 1.0
O3A J:ADP601 4.2 33.7 1.0
CB J:ASP87 4.3 36.4 1.0
O3B J:ADP601 4.8 33.7 1.0
N J:GLY88 4.8 27.7 1.0
CA J:ASP87 4.9 36.4 1.0

Reference:

J.Wagner, A.I.Caravajal, F.Beck, A.Bracher, W.Wan, S.Bohn, R.Koerner, W.Baumeister, R.Fernandez-Busnadiego, F.U.Hartl. Visualizing Chaperonin Function in Situ By Cryo-Electron Tomography Nature 2024.
ISSN: ESSN 1476-4687
Page generated: Fri Oct 4 17:12:35 2024

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