Magnesium in PDB 8wuw: Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex

Enzymatic activity of Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex

All present enzymatic activity of Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex:
5.6.1.7;

Other elements in 8wuw:

The structure of Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex also contains other interesting chemical elements:

Potassium (K) 7 atoms

Magnesium Binding Sites:

Pages:

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

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex (pdb code 8wuw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 14 binding sites of Magnesium where determined in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex, PDB code: 8wuw:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 14 in 8wuw

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Magnesium binding site 1 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:76.8
occ:1.00
 O3G A:ANP602 2.1 85.4 1.0
O2A A:ANP602 2.1 86.9 1.0
OD1 A:ASP87 2.3 93.8 1.0
O1B A:ANP602 2.4 78.6 1.0
CG A:ASP87 3.1 88.3 1.0
OD2 A:ASP87 3.1 92.2 1.0
PG A:ANP602 3.4 84.6 1.0
PB A:ANP602 3.5 71.3 1.0
PA A:ANP602 3.5 84.5 1.0
N3B A:ANP602 3.7 72.9 1.0
O3A A:ANP602 3.8 69.5 1.0
OD2 A:ASP398 4.2 106.1 1.0
O1G A:ANP602 4.2 78.7 1.0
C5' A:ANP602 4.3 79.5 1.0
O5' A:ANP602 4.4 78.7 1.0
N A:GLY88 4.4 70.0 1.0
O A:SER151 4.4 81.7 1.0
CB A:ASP87 4.5 75.3 1.0
O2G A:ANP602 4.6 88.1 1.0
O1A A:ANP602 4.7 76.4 1.0
CA A:SER151 4.8 73.5 1.0
O2B A:ANP602 4.9 73.9 1.0
CG A:ASP398 5.0 104.8 1.0
CA A:ASP87 5.0 73.2 1.0

Magnesium binding site 2 out of 14 in 8wuw

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Magnesium binding site 2 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg601

b:89.2
occ:1.00
 OD1 H:ASP87 2.0 106.5 1.0
O2A H:ANP603 2.0 94.3 1.0
O1G H:ANP603 2.1 107.4 1.0
O1B H:ANP603 2.5 86.8 1.0
CG H:ASP87 3.2 106.5 1.0
PA H:ANP603 3.4 90.1 1.0
PG H:ANP603 3.4 110.7 1.0
PB H:ANP603 3.5 85.2 1.0
N3B H:ANP603 3.7 90.6 1.0
O3A H:ANP603 3.8 85.9 1.0
O H:SER151 3.9 112.9 1.0
OD2 H:ASP87 4.0 111.2 1.0
C5' H:ANP603 4.1 90.2 1.0
CB H:ASP87 4.1 94.0 1.0
O5' H:ANP603 4.1 94.0 1.0
O2G H:ANP603 4.3 98.4 1.0
O3G H:ANP603 4.5 96.6 1.0
O1A H:ANP603 4.6 83.5 1.0
O H:ILE150 4.8 104.5 1.0
C H:SER151 4.9 104.2 1.0
CA H:ASP87 4.9 91.0 1.0
O2B H:ANP603 4.9 85.0 1.0

Magnesium binding site 3 out of 14 in 8wuw

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Magnesium binding site 3 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:77.4
occ:1.00
 O2A B:ANP602 2.1 84.8 1.0
O3G B:ANP602 2.2 89.3 1.0
OD1 B:ASP87 2.3 95.3 1.0
O1B B:ANP602 2.4 77.7 1.0
CG B:ASP87 3.0 90.4 1.0
OD2 B:ASP87 3.1 95.4 1.0
PA B:ANP602 3.5 82.9 1.0
PG B:ANP602 3.5 86.6 1.0
PB B:ANP602 3.5 72.4 1.0
N3B B:ANP602 3.8 74.5 1.0
O3A B:ANP602 3.9 68.1 1.0
OD1 B:ASP398 4.0 108.8 1.0
O1G B:ANP602 4.2 80.5 1.0
C5' B:ANP602 4.3 79.7 1.0
O B:SER151 4.3 79.5 1.0
O5' B:ANP602 4.4 79.8 1.0
N B:GLY88 4.4 71.9 1.0
CB B:ASP87 4.5 77.0 1.0
O1A B:ANP602 4.7 78.7 1.0
O2G B:ANP602 4.7 91.0 1.0
CA B:SER151 4.7 72.1 1.0
CG B:ASP398 4.9 106.3 1.0
O2B B:ANP602 4.9 74.7 1.0
CA B:ASP87 5.0 76.4 1.0
CB B:SER151 5.0 75.9 1.0
C B:SER151 5.0 73.2 1.0

Magnesium binding site 4 out of 14 in 8wuw

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Magnesium binding site 4 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg601

b:84.7
occ:1.00
 OD1 I:ASP87 2.0 103.2 1.0
O2A I:ANP603 2.0 95.8 1.0
O1G I:ANP603 2.1 108.8 1.0
O1B I:ANP603 2.5 89.3 1.0
CG I:ASP87 3.2 107.0 1.0
PA I:ANP603 3.4 90.8 1.0
PG I:ANP603 3.4 110.2 1.0
PB I:ANP603 3.5 86.8 1.0
N3B I:ANP603 3.7 89.1 1.0
O3A I:ANP603 3.8 88.9 1.0
O I:SER151 3.9 109.8 1.0
OD2 I:ASP87 4.0 112.3 1.0
C5' I:ANP603 4.0 90.2 1.0
CB I:ASP87 4.1 91.9 1.0
O5' I:ANP603 4.1 93.6 1.0
O2G I:ANP603 4.3 97.9 1.0
O3G I:ANP603 4.5 95.8 1.0
O1A I:ANP603 4.6 84.1 1.0
O I:ILE150 4.8 104.6 1.0
C I:SER151 4.9 103.4 1.0
O2B I:ANP603 4.9 84.8 1.0
CA I:ASP87 4.9 88.2 1.0

Magnesium binding site 5 out of 14 in 8wuw

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Magnesium binding site 5 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:75.2
occ:1.00
 O3G C:ANP602 2.1 84.6 1.0
O2A C:ANP602 2.2 83.8 1.0
OD1 C:ASP87 2.3 90.8 1.0
O1B C:ANP602 2.4 74.9 1.0
CG C:ASP87 3.1 85.2 1.0
OD2 C:ASP87 3.2 87.7 1.0
PG C:ANP602 3.4 82.3 1.0
PB C:ANP602 3.5 69.2 1.0
PA C:ANP602 3.5 81.7 1.0
N3B C:ANP602 3.7 70.8 1.0
O3A C:ANP602 3.8 68.8 1.0
OD2 C:ASP398 4.1 102.3 1.0
O1G C:ANP602 4.2 77.8 1.0
C5' C:ANP602 4.3 76.5 1.0
N C:GLY88 4.3 68.0 1.0
O5' C:ANP602 4.4 76.7 1.0
O C:SER151 4.4 79.5 1.0
CB C:ASP87 4.5 72.8 1.0
O2G C:ANP602 4.6 84.3 1.0
O1A C:ANP602 4.7 74.5 1.0
CA C:SER151 4.8 72.4 1.0
O2B C:ANP602 4.9 72.6 1.0
CG C:ASP398 4.9 102.0 1.0
CA C:ASP87 5.0 71.1 1.0

Magnesium binding site 6 out of 14 in 8wuw

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Magnesium binding site 6 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg601

b:92.0
occ:1.00
 OD1 J:ASP87 2.0 106.6 1.0
O2A J:ANP603 2.0 95.5 1.0
O1G J:ANP603 2.1 107.2 1.0
O1B J:ANP603 2.4 88.4 1.0
CG J:ASP87 3.2 106.8 1.0
PA J:ANP603 3.4 88.1 1.0
PG J:ANP603 3.4 110.5 1.0
PB J:ANP603 3.5 84.5 1.0
N3B J:ANP603 3.6 90.2 1.0
O3A J:ANP603 3.7 83.7 1.0
O J:SER151 4.0 110.5 1.0
OD2 J:ASP87 4.0 114.1 1.0
CB J:ASP87 4.1 93.9 1.0
C5' J:ANP603 4.1 87.7 1.0
O5' J:ANP603 4.1 93.0 1.0
O2G J:ANP603 4.2 98.1 1.0
O3G J:ANP603 4.5 97.8 1.0
O1A J:ANP603 4.6 81.8 1.0
O J:ILE150 4.8 104.3 1.0
O2B J:ANP603 4.9 84.6 1.0
C J:SER151 4.9 102.9 1.0
CA J:ASP87 4.9 88.6 1.0

Magnesium binding site 7 out of 14 in 8wuw

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Magnesium binding site 7 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg601

b:82.1
occ:1.00
 O3G D:ANP602 2.1 95.8 1.0
O2A D:ANP602 2.2 92.7 1.0
O1B D:ANP602 2.4 86.0 1.0
OD1 D:ASP87 2.6 107.6 1.0
OD2 D:ASP87 2.8 101.2 1.0
CG D:ASP87 3.0 99.6 1.0
PG D:ANP602 3.5 96.0 1.0
PA D:ANP602 3.5 93.0 1.0
PB D:ANP602 3.5 81.0 1.0
N3B D:ANP602 3.8 81.9 1.0
O3A D:ANP602 3.8 79.5 1.0
C5' D:ANP602 4.2 88.7 1.0
O5' D:ANP602 4.3 87.0 1.0
OD2 D:ASP398 4.3 112.3 1.0
O D:SER151 4.4 87.7 1.0
O1G D:ANP602 4.4 89.0 1.0
N D:GLY88 4.4 76.8 1.0
CB D:ASP87 4.5 84.1 1.0
O2G D:ANP602 4.5 99.8 1.0
O1A D:ANP602 4.7 88.2 1.0
CA D:SER151 4.7 79.4 1.0
O2B D:ANP602 4.9 82.8 1.0
CA D:ASP87 5.0 83.1 1.0
CB D:SER151 5.0 82.5 1.0

Magnesium binding site 8 out of 14 in 8wuw

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Magnesium binding site 8 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg601

b:87.2
occ:1.00
 OD2 K:ASP87 2.0 107.2 1.0
O2A K:ANP603 2.0 95.9 1.0
O1G K:ANP603 2.1 110.6 1.0
O1B K:ANP603 2.6 87.2 1.0
CG K:ASP87 2.6 105.9 1.0
OD1 K:ASP87 2.8 107.6 1.0
PG K:ANP603 3.4 110.9 1.0
PA K:ANP603 3.4 89.2 1.0
PB K:ANP603 3.5 86.3 1.0
N3B K:ANP603 3.7 90.6 1.0
O3A K:ANP603 3.8 88.2 1.0
O K:SER151 3.9 111.0 1.0
CB K:ASP87 4.0 94.3 1.0
C5' K:ANP603 4.1 92.7 1.0
O2G K:ANP603 4.2 101.3 1.0
O5' K:ANP603 4.2 94.6 1.0
O3G K:ANP603 4.5 95.6 1.0
O1A K:ANP603 4.6 84.2 1.0
O K:ILE150 4.8 101.6 1.0
C K:SER151 4.9 102.5 1.0
CA K:ASP87 4.9 91.9 1.0
O2B K:ANP603 5.0 83.7 1.0

Magnesium binding site 9 out of 14 in 8wuw

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Magnesium binding site 9 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg601

b:74.5
occ:1.00
 O3G E:ANP602 2.1 83.9 1.0
O2A E:ANP602 2.1 86.5 1.0
OD1 E:ASP87 2.4 92.1 1.0
O1B E:ANP602 2.5 77.4 1.0
CG E:ASP87 3.1 88.9 1.0
OD2 E:ASP87 3.2 93.0 1.0
PG E:ANP602 3.5 85.7 1.0
PA E:ANP602 3.5 84.2 1.0
PB E:ANP602 3.6 72.1 1.0
N3B E:ANP602 3.8 73.8 1.0
O3A E:ANP602 3.9 70.1 1.0
OD2 E:ASP398 4.0 102.7 1.0
O E:SER151 4.3 79.8 1.0
C5' E:ANP602 4.3 79.4 1.0
O1G E:ANP602 4.3 78.2 1.0
O5' E:ANP602 4.4 79.2 1.0
N E:GLY88 4.5 70.1 1.0
CB E:ASP87 4.6 77.7 1.0
O2G E:ANP602 4.6 87.8 1.0
CA E:SER151 4.7 72.9 1.0
O1A E:ANP602 4.7 76.8 1.0
CG E:ASP398 4.9 101.7 1.0
C E:SER151 5.0 73.0 1.0
CB E:SER151 5.0 76.2 1.0
O2B E:ANP602 5.0 73.4 1.0

Magnesium binding site 10 out of 14 in 8wuw

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Magnesium binding site 10 out of 14 in the Cryo-Em Structure of H. Thermophilus Groel-GROES2 Asymmetric Football Complex


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 H. Thermophilus Groel-GROES2 Asymmetric Football Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg601

b:92.2
occ:1.00
 OD1 L:ASP87 2.0 108.5 1.0
O2A L:ANP603 2.0 98.8 1.0
O1G L:ANP603 2.1 109.7 1.0
O1B L:ANP603 2.5 89.1 1.0
CG L:ASP87 3.2 110.0 1.0
PA L:ANP603 3.4 92.3 1.0
PG L:ANP603 3.4 112.8 1.0
PB L:ANP603 3.5 85.8 1.0
N3B L:ANP603 3.7 90.4 1.0
O3A L:ANP603 3.8 87.2 1.0
O L:SER151 4.0 117.3 1.0
OD2 L:ASP87 4.0 116.2 1.0
C5' L:ANP603 4.0 92.1 1.0
CB L:ASP87 4.1 97.0 1.0
O5' L:ANP603 4.1 95.4 1.0
O2G L:ANP603 4.3 100.0 1.0
O3G L:ANP603 4.5 98.7 1.0
O1A L:ANP603 4.6 86.0 1.0
O L:ILE150 4.8 109.1 1.0
C L:SER151 4.9 108.1 1.0
CA L:ASP87 4.9 92.4 1.0
O2B L:ANP603 4.9 86.5 1.0

Reference:

Z.Liao, C.C.Gopalasingam, M.Kameya, C.Gerle, H.Shigematsu, M.Ishii, T.Arakawa, S.Fushinobu. Structural Insights Into Thermophilic Chaperonin Complexes. Structure 2024.
ISSN: ISSN 0969-2126
PubMed: 38492570
DOI: 10.1016/J.STR.2024.02.012
Page generated: Sat Oct 5 00:56:22 2024

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