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Magnesium in PDB 8oid: Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S Mutation

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S Mutation (pdb code 8oid). 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 N111S Mutation, PDB code: 8oid:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 8oid

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Magnesium binding site 1 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S 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 N111S Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg402

b:25.6
occ:1.00
 O C:HOH557 1.8 19.6 1.0
O C:HOH514 1.9 22.2 1.0
O C:HOH532 1.9 23.0 1.0
O2B C:ADP401 2.0 21.3 1.0
O C:HOH571 2.0 22.3 1.0
O C:HOH528 2.5 23.4 1.0
PB C:ADP401 3.3 21.3 1.0
O C:HOH564 3.7 23.8 1.0
O3B C:ADP401 3.7 21.3 1.0
O3A C:ADP401 3.9 21.3 1.0
OD1 C:ASP154 4.0 21.7 1.0
O2A C:ADP401 4.1 21.3 1.0
NZ C:LYS18 4.2 26.0 1.0
O C:HOH503 4.3 23.2 1.0
OE1 C:GLN137 4.4 26.1 1.0
OD2 C:ASP11 4.5 27.0 1.0
O1B C:ADP401 4.5 21.3 1.0
PA C:ADP401 4.5 21.3 1.0
CA C:GLY156 4.6 20.5 1.0
CA C:GLY13 4.6 26.4 1.0
OD2 C:ASP154 4.6 21.7 1.0
OD1 C:ASP11 4.6 27.0 1.0
O C:HOH584 4.7 23.2 1.0
CD C:GLN137 4.7 26.1 1.0
CG C:ASP154 4.7 21.7 1.0
NE2 C:GLN137 4.8 26.1 1.0
CG C:ASP11 4.9 27.0 1.0
O1A C:ADP401 5.0 21.3 1.0

Magnesium binding site 2 out of 5 in 8oid

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Magnesium binding site 2 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S 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 N111S Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:25.6
occ:1.00
 O A:HOH526 1.9 23.0 1.0
O A:HOH542 1.9 19.6 1.0
O A:HOH506 2.0 22.2 1.0
O2B A:ADP401 2.0 21.3 1.0
O A:HOH555 2.2 22.3 1.0
O A:HOH514 2.4 23.4 1.0
PB A:ADP401 3.3 21.3 1.0
O A:HOH530 3.7 23.8 1.0
O3B A:ADP401 3.7 21.3 1.0
O3A A:ADP401 3.9 21.3 1.0
OD1 A:ASP154 4.0 21.7 1.0
O2A A:ADP401 4.1 21.3 1.0
NZ A:LYS18 4.2 26.0 1.0
O A:HOH502 4.3 23.2 1.0
OE1 A:GLN137 4.4 26.1 1.0
OD2 A:ASP11 4.5 27.0 1.0
O1B A:ADP401 4.5 21.3 1.0
PA A:ADP401 4.5 21.3 1.0
CA A:GLY13 4.6 26.4 1.0
CA A:GLY156 4.6 20.5 1.0
OD2 A:ASP154 4.6 21.7 1.0
OD1 A:ASP11 4.6 27.0 1.0
CD A:GLN137 4.7 26.1 1.0
CG A:ASP154 4.7 21.7 1.0
NE2 A:GLN137 4.8 26.1 1.0
CG A:ASP11 4.9 27.0 1.0
O1A A:ADP401 5.0 21.3 1.0

Magnesium binding site 3 out of 5 in 8oid

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Magnesium binding site 3 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S 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 N111S Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg402

b:25.6
occ:1.00
 O B:HOH548 1.9 19.6 1.0
O B:HOH520 1.9 22.2 1.0
O B:HOH530 1.9 23.0 1.0
O B:HOH557 2.0 22.3 1.0
O2B B:ADP401 2.0 21.3 1.0
O B:HOH518 2.5 23.4 1.0
PB B:ADP401 3.3 21.3 1.0
O B:HOH559 3.7 23.8 1.0
O3B B:ADP401 3.7 21.3 1.0
O3A B:ADP401 3.9 21.3 1.0
OD1 B:ASP154 4.0 21.7 1.0
O2A B:ADP401 4.1 21.3 1.0
NZ B:LYS18 4.2 26.0 1.0
O B:HOH503 4.2 23.2 1.0
OE1 B:GLN137 4.4 26.1 1.0
OD2 B:ASP11 4.5 27.0 1.0
O1B B:ADP401 4.5 21.3 1.0
PA B:ADP401 4.5 21.3 1.0
CA B:GLY13 4.6 26.4 1.0
CA B:GLY156 4.6 20.5 1.0
OD2 B:ASP154 4.6 21.7 1.0
OD1 B:ASP11 4.6 27.0 1.0
O B:HOH578 4.6 23.2 1.0
CD B:GLN137 4.7 26.1 1.0
CG B:ASP154 4.7 21.7 1.0
NE2 B:GLN137 4.8 26.1 1.0
CG B:ASP11 4.9 27.0 1.0
O1A B:ADP401 5.0 21.3 1.0

Magnesium binding site 4 out of 5 in 8oid

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Magnesium binding site 4 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S 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 N111S Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg402

b:25.6
occ:1.00
 O D:HOH544 1.9 19.6 1.0
O2B D:ADP401 2.0 21.3 1.0
O D:HOH547 2.0 23.0 1.0
O D:HOH535 2.0 22.2 1.0
O D:HOH562 2.0 22.3 1.0
O D:HOH519 2.5 23.4 1.0
PB D:ADP401 3.3 21.3 1.0
O D:HOH554 3.7 23.8 1.0
O3B D:ADP401 3.7 21.3 1.0
O3A D:ADP401 3.9 21.3 1.0
OD1 D:ASP154 4.0 21.7 1.0
O2A D:ADP401 4.1 21.3 1.0
NZ D:LYS18 4.2 26.0 1.0
OE1 D:GLN137 4.4 26.1 1.0
O D:HOH505 4.4 23.2 1.0
OD2 D:ASP11 4.5 27.0 1.0
O1B D:ADP401 4.5 21.3 1.0
PA D:ADP401 4.5 21.3 1.0
CA D:GLY13 4.6 26.4 1.0
CA D:GLY156 4.6 20.5 1.0
OD2 D:ASP154 4.6 21.7 1.0
OD1 D:ASP11 4.6 27.0 1.0
O D:HOH577 4.7 23.2 1.0
CD D:GLN137 4.7 26.1 1.0
CG D:ASP154 4.7 21.7 1.0
NE2 D:GLN137 4.8 26.1 1.0
CG D:ASP11 4.9 27.0 1.0
O1A D:ADP401 5.0 21.3 1.0

Magnesium binding site 5 out of 5 in 8oid

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Magnesium binding site 5 out of 5 in the Cryo-Em Structure of Adp-Bound, Filamentous Beta-Actin Harboring the N111S 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 N111S Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg402

b:25.6
occ:1.00
 O E:HOH515 1.9 19.6 1.0
O E:HOH512 1.9 23.0 1.0
O E:HOH505 1.9 22.2 1.0
O2B E:ADP401 2.0 21.3 1.0
O E:HOH530 2.0 22.3 1.0
O E:HOH520 2.4 23.4 1.0
PB E:ADP401 3.3 21.3 1.0
O E:HOH538 3.6 23.8 1.0
O3B E:ADP401 3.7 21.3 1.0
O3A E:ADP401 3.9 21.3 1.0
OD1 E:ASP154 4.0 21.7 1.0
O2A E:ADP401 4.1 21.3 1.0
NZ E:LYS18 4.2 26.0 1.0
OE1 E:GLN137 4.4 26.1 1.0
O E:HOH504 4.4 23.2 1.0
OD2 E:ASP11 4.5 27.0 1.0
O1B E:ADP401 4.5 21.3 1.0
PA E:ADP401 4.5 21.3 1.0
CA E:GLY13 4.5 26.4 1.0
CA E:GLY156 4.6 20.5 1.0
O E:HOH540 4.6 23.2 1.0
OD2 E:ASP154 4.6 21.7 1.0
OD1 E:ASP11 4.6 27.0 1.0
CD E:GLN137 4.7 26.1 1.0
CG E:ASP154 4.7 21.7 1.0
NE2 E:GLN137 4.8 26.1 1.0
CG E:ASP11 4.9 27.0 1.0
O1A E:ADP401 5.0 21.3 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: Thu Dec 28 10:02:26 2023

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