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Magnesium in PDB 8oi8: Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation (pdb code 8oi8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation, PDB code: 8oi8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 8oi8

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Magnesium binding site 1 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation


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 Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg402

b:23.4
occ:1.00
 O C:HOH525 1.8 19.6 1.0
O C:HOH533 1.9 22.2 1.0
O3B C:ADP401 2.0 24.4 1.0
O C:HOH509 2.0 23.0 1.0
O2A C:ADP401 2.1 24.4 1.0
O C:HOH590 2.2 23.8 1.0
PA C:ADP401 3.3 24.4 1.0
PB C:ADP401 3.3 24.4 1.0
O3A C:ADP401 3.6 24.4 1.0
O1A C:ADP401 4.1 24.4 1.0
CA C:GLY301 4.1 22.5 1.0
NZ C:LYS18 4.2 28.7 1.0
O C:HOH548 4.2 23.4 1.0
CA C:GLY156 4.2 22.9 1.0
O C:HOH612 4.2 20.9 1.0
O1B C:ADP401 4.3 24.4 1.0
O2B C:ADP401 4.3 24.4 1.0
OD1 C:ASP154 4.4 23.6 1.0
OD2 C:ASP154 4.4 23.6 1.0
OD2 C:ASP11 4.5 30.4 1.0
O5' C:ADP401 4.5 24.4 1.0
N C:GLY302 4.6 22.8 1.0
N C:GLY156 4.8 22.9 1.0
CG C:ASP154 4.8 23.6 1.0
O C:HOH510 4.8 21.7 1.0
C C:GLY301 5.0 22.5 1.0
O C:HOH591 5.0 22.3 1.0

Magnesium binding site 2 out of 5 in 8oi8

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Magnesium binding site 2 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation


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 Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:23.4
occ:1.00
 O A:HOH541 1.8 19.6 1.0
O A:HOH510 1.9 23.0 1.0
O A:HOH534 1.9 22.2 1.0
O3B A:ADP401 2.0 24.4 1.0
O2A A:ADP401 2.1 24.4 1.0
O A:HOH557 2.2 23.8 1.0
PA A:ADP401 3.3 24.4 1.0
PB A:ADP401 3.3 24.4 1.0
O3A A:ADP401 3.6 24.4 1.0
O A:HOH535 3.9 23.4 1.0
O1A A:ADP401 4.1 24.4 1.0
CA A:GLY301 4.1 22.5 1.0
NZ A:LYS18 4.2 28.7 1.0
CA A:GLY156 4.2 22.9 1.0
O A:HOH576 4.3 20.9 1.0
O1B A:ADP401 4.3 24.4 1.0
O2B A:ADP401 4.3 24.4 1.0
OD1 A:ASP154 4.4 23.6 1.0
OD2 A:ASP154 4.4 23.6 1.0
OD2 A:ASP11 4.5 30.4 1.0
O5' A:ADP401 4.5 24.4 1.0
N A:GLY302 4.6 22.8 1.0
N A:GLY156 4.8 22.9 1.0
CG A:ASP154 4.8 23.6 1.0
O A:HOH588 4.8 22.3 1.0
O A:HOH533 4.9 21.7 1.0
C A:GLY301 5.0 22.5 1.0

Magnesium binding site 3 out of 5 in 8oi8

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Magnesium binding site 3 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation


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 Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:23.4
occ:1.00
 O B:HOH530 1.8 19.6 1.0
O B:HOH534 1.9 22.2 1.0
O3B B:ADP401 2.0 24.4 1.0
O B:HOH510 2.0 23.0 1.0
O2A B:ADP401 2.1 24.4 1.0
O B:HOH604 2.1 23.8 1.0
PA B:ADP401 3.3 24.4 1.0
PB B:ADP401 3.3 24.4 1.0
O3A B:ADP401 3.6 24.4 1.0
O B:HOH549 4.0 23.4 1.0
O1A B:ADP401 4.1 24.4 1.0
CA B:GLY301 4.1 22.5 1.0
NZ B:LYS18 4.2 28.7 1.0
O B:HOH608 4.2 20.9 1.0
CA B:GLY156 4.2 22.9 1.0
O1B B:ADP401 4.3 24.4 1.0
O2B B:ADP401 4.3 24.4 1.0
OD1 B:ASP154 4.4 23.6 1.0
OD2 B:ASP154 4.4 23.6 1.0
OD2 B:ASP11 4.5 30.4 1.0
O5' B:ADP401 4.5 24.4 1.0
N B:GLY302 4.6 22.8 1.0
O B:HOH521 4.8 21.7 1.0
N B:GLY156 4.8 22.9 1.0
CG B:ASP154 4.8 23.6 1.0
C B:GLY301 5.0 22.5 1.0
O B:HOH592 5.0 22.3 1.0

Magnesium binding site 4 out of 5 in 8oi8

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Magnesium binding site 4 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation


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 Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg402

b:23.4
occ:1.00
 O D:HOH512 1.8 19.6 1.0
O D:HOH511 1.8 22.2 1.0
O3B D:ADP401 2.0 24.4 1.0
O D:HOH611 2.1 23.8 1.0
O2A D:ADP401 2.1 24.4 1.0
O D:HOH516 2.2 23.0 1.0
PA D:ADP401 3.3 24.4 1.0
PB D:ADP401 3.3 24.4 1.0
O3A D:ADP401 3.6 24.4 1.0
O1A D:ADP401 4.1 24.4 1.0
CA D:GLY301 4.1 22.5 1.0
O D:HOH593 4.1 20.9 1.0
NZ D:LYS18 4.2 28.7 1.0
CA D:GLY156 4.2 22.9 1.0
O1B D:ADP401 4.3 24.4 1.0
O2B D:ADP401 4.3 24.4 1.0
OD1 D:ASP154 4.4 23.6 1.0
O D:HOH531 4.4 23.4 1.0
OD2 D:ASP154 4.4 23.6 1.0
OD2 D:ASP11 4.5 30.4 1.0
O5' D:ADP401 4.5 24.4 1.0
N D:GLY302 4.6 22.8 1.0
N D:GLY156 4.8 22.9 1.0
O D:HOH507 4.8 21.7 1.0
CG D:ASP154 4.8 23.6 1.0
C D:GLY301 5.0 22.5 1.0

Magnesium binding site 5 out of 5 in 8oi8

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Magnesium binding site 5 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation


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 Adp-Bound, Filamentous Beta-Actin Harboring the R183W Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg402

b:23.4
occ:1.00
 O E:HOH507 1.8 19.6 1.0
O E:HOH504 1.9 22.2 1.0
O3B E:ADP401 2.0 24.4 1.0
O E:HOH557 2.0 23.8 1.0
O2A E:ADP401 2.1 24.4 1.0
O E:HOH501 2.1 23.0 1.0
PA E:ADP401 3.3 24.4 1.0
PB E:ADP401 3.3 24.4 1.0
O3A E:ADP401 3.6 24.4 1.0
O E:HOH567 4.0 20.9 1.0
O1A E:ADP401 4.1 24.4 1.0
CA E:GLY301 4.1 22.5 1.0
NZ E:LYS18 4.2 28.7 1.0
CA E:GLY156 4.2 22.9 1.0
O1B E:ADP401 4.3 24.4 1.0
O2B E:ADP401 4.3 24.4 1.0
OD1 E:ASP154 4.4 23.6 1.0
OD2 E:ASP154 4.4 23.6 1.0
O E:HOH523 4.5 23.4 1.0
OD2 E:ASP11 4.5 30.4 1.0
O5' E:ADP401 4.5 24.4 1.0
N E:GLY302 4.6 22.8 1.0
O E:HOH502 4.6 21.7 1.0
N E:GLY156 4.8 22.9 1.0
CG E:ASP154 4.8 23.6 1.0
C E:GLY301 5.0 22.5 1.0

Reference:

W.Oosterheert, F.E.C.Blanc, A.Roy, A.Belyy, O.Hofnagel, G.Hummer, P.Bieling, S.Raunser. Molecular Mechanisms of Inorganic-Phosphate Release From the Core and Barbed End of Actin Filaments To Be Published.
Page generated: Fri Oct 4 14:49:33 2024

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