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Magnesium in PDB 7pm6: Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) (pdb code 7pm6). 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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER), PDB code: 7pm6:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 7pm6

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Magnesium binding site 1 out of 5 in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)


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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1901

b:71.5
occ:1.00
O1B A:ADP1902 1.9 78.4 1.0
OG1 A:THR170 2.6 74.2 1.0
OG A:SER218 2.8 63.1 1.0
PB A:ADP1902 3.2 78.4 1.0
O3B A:ADP1902 3.6 78.4 1.0
CB A:THR170 3.9 74.2 1.0
CB A:SER218 4.0 63.1 1.0
O3A A:ADP1902 4.0 78.4 1.0
O2B A:ADP1902 4.4 78.4 1.0
OD2 A:ASP437 4.4 66.0 1.0
ND2 A:ASN208 4.5 65.4 1.0
O A:ASN216 4.5 66.9 1.0
OE2 A:GLU204 4.6 73.1 1.0
CG2 A:THR170 4.7 74.2 1.0
N A:SER218 4.7 63.1 1.0
N A:THR170 4.8 74.2 1.0
PA A:ADP1902 4.8 78.4 1.0
O1A A:ADP1902 4.9 78.4 1.0
ND2 A:ASN216 4.9 66.9 1.0
CA A:THR170 4.9 74.2 1.0
NZ A:LYS169 4.9 70.9 1.0
CA A:SER218 4.9 63.1 1.0

Magnesium binding site 2 out of 5 in 7pm6

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Magnesium binding site 2 out of 5 in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)


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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg402

b:53.5
occ:1.00
O2B C:ADP401 2.3 54.8 1.0
PB C:ADP401 3.5 54.8 1.0
O2A C:ADP401 3.6 54.8 1.0
O3B C:ADP401 3.7 54.8 1.0
OD1 C:ASP154 4.0 52.2 1.0
CA C:GLY156 4.0 50.6 1.0
O3A C:ADP401 4.1 54.8 1.0
OD2 C:ASP154 4.3 52.2 1.0
PA C:ADP401 4.4 54.8 1.0
CA C:GLY301 4.5 50.2 1.0
OE1 C:GLN137 4.5 54.7 1.0
NE2 C:GLN137 4.5 54.7 1.0
N C:GLY156 4.6 50.6 1.0
CG C:ASP154 4.6 52.2 1.0
CD C:GLN137 4.6 54.7 1.0
O1B C:ADP401 4.7 54.8 1.0
O C:SER155 4.7 50.6 1.0
CG2 C:VAL339 4.8 47.0 1.0
C C:SER155 4.8 50.6 1.0
OD2 C:ASP11 4.9 57.5 1.0

Magnesium binding site 3 out of 5 in 7pm6

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Magnesium binding site 3 out of 5 in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)


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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1901

b:75.5
occ:1.00
O1B D:ADP1902 2.0 84.0 1.0
OG1 D:THR170 2.3 79.5 1.0
OG D:SER218 2.9 68.2 1.0
PB D:ADP1902 3.4 84.0 1.0
CB D:THR170 3.6 79.5 1.0
O3B D:ADP1902 3.8 84.0 1.0
CB D:SER218 4.1 68.2 1.0
O3A D:ADP1902 4.2 84.0 1.0
ND2 D:ASN208 4.2 70.6 1.0
CG2 D:THR170 4.2 79.5 1.0
OD2 D:ASP437 4.2 71.7 1.0
O2B D:ADP1902 4.5 84.0 1.0
OE2 D:GLU204 4.5 80.6 1.0
CA D:THR170 4.7 79.5 1.0
N D:THR170 4.7 79.5 1.0
O D:ASN216 4.7 73.0 1.0
CD D:GLU204 4.9 80.6 1.0
ND2 D:ASN216 4.9 73.0 1.0
O2A D:ADP1902 4.9 84.0 1.0
N D:SER218 5.0 68.2 1.0

Magnesium binding site 4 out of 5 in 7pm6

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Magnesium binding site 4 out of 5 in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)


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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg402

b:52.3
occ:1.00
O2B F:ADP401 2.0 54.1 1.0
PB F:ADP401 3.4 54.1 1.0
O2A F:ADP401 3.5 54.1 1.0
O3B F:ADP401 3.8 54.1 1.0
OD1 F:ASP154 4.1 50.4 1.0
O3A F:ADP401 4.1 54.1 1.0
CA F:GLY156 4.1 49.3 1.0
CA F:GLY301 4.3 49.1 1.0
PA F:ADP401 4.3 54.1 1.0
OD2 F:ASP154 4.4 50.4 1.0
O1B F:ADP401 4.5 54.1 1.0
CG2 F:VAL339 4.6 45.8 1.0
CG F:ASP154 4.6 50.4 1.0
OE1 F:GLN137 4.7 53.2 1.0
NE2 F:GLN137 4.7 53.2 1.0
N F:GLY156 4.7 49.3 1.0
CD F:GLN137 4.7 53.2 1.0
NZ F:LYS18 4.7 49.9 1.0
O F:SER155 4.8 49.6 1.0
OD2 F:ASP11 4.9 57.2 1.0
C F:SER155 4.9 49.6 1.0

Magnesium binding site 5 out of 5 in 7pm6

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Magnesium binding site 5 out of 5 in the Cryo-Em Structure of the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER)


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 the Actomyosin-V Complex in the Strong-Adp State (Central 3ER/2ER) within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg402

b:53.7
occ:1.00
O2B G:ADP401 2.0 52.6 1.0
PB G:ADP401 3.3 52.6 1.0
O2A G:ADP401 3.6 52.6 1.0
O3B G:ADP401 3.7 52.6 1.0
O3A G:ADP401 4.0 52.6 1.0
CA G:GLY156 4.2 49.9 1.0
OD1 G:ASP154 4.3 52.9 1.0
NE2 G:GLN137 4.3 55.8 1.0
OD2 G:ASP11 4.3 58.5 1.0
PA G:ADP401 4.4 52.6 1.0
O1B G:ADP401 4.5 52.6 1.0
NZ G:LYS18 4.5 50.4 1.0
CD G:GLN137 4.5 55.8 1.0
OE1 G:GLN137 4.6 55.8 1.0
OD2 G:ASP154 4.6 52.9 1.0
CA G:GLY301 4.8 48.6 1.0
CG2 G:VAL339 4.8 47.6 1.0
CA G:GLY13 4.9 56.8 1.0
N G:GLY156 4.9 49.9 1.0
CG G:ASP154 4.9 52.9 1.0

Reference:

S.Pospich, H.L.Sweeney, A.Houdusse, S.Raunser. High-Resolution Structures of the Actomyosin-V Complex in Three Nucleotide States Provide Insights Into the Force Generation Mechanism. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 34812732
DOI: 10.7554/ELIFE.73724
Page generated: Thu Oct 3 04:39:38 2024

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