Magnesium in PDB 8ghf: Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles

Other elements in 8ghf:

The structure of Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles also contains other interesting chemical elements:

Calcium (Ca) 8 atoms
Sodium (Na) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles (pdb code 8ghf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles, PDB code: 8ghf:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 8ghf

Go back to Magnesium Binding Sites List in 8ghf
Magnesium binding site 1 out of 4 in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles


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 HSLO1 in Plasma Membrane Vesicles within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1501

b:24.7
occ:1.00
OE2 A:GLU399 2.5 43.5 1.0
OE2 A:GLU374 3.1 42.7 1.0
CD A:GLU399 3.6 41.5 1.0
CD A:GLU374 4.1 37.4 1.0
CG A:GLU399 4.2 34.7 1.0
O A:THR396 4.5 37.0 1.0
OE1 A:GLU374 4.5 41.0 1.0
ND2 B:ASN172 4.5 59.0 1.0
OE1 A:GLU399 4.6 37.9 1.0
O A:PHE395 4.7 47.5 1.0
C A:THR396 4.8 38.1 1.0
OD1 B:ASN172 4.8 56.5 1.0
CA A:THR396 4.8 32.8 1.0

Magnesium binding site 2 out of 4 in 8ghf

Go back to Magnesium Binding Sites List in 8ghf
Magnesium binding site 2 out of 4 in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles


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 HSLO1 in Plasma Membrane Vesicles within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1501

b:25.3
occ:1.00
OE2 B:GLU399 2.5 43.5 1.0
OE2 B:GLU374 3.2 42.5 1.0
CD B:GLU399 3.6 41.0 1.0
CD B:GLU374 4.1 37.0 1.0
CG B:GLU399 4.2 34.9 1.0
OE1 B:GLU374 4.4 40.1 1.0
O B:THR396 4.5 37.8 1.0
ND2 D:ASN172 4.5 59.3 1.0
OE1 B:GLU399 4.6 38.0 1.0
O B:PHE395 4.7 47.1 1.0
C B:THR396 4.8 38.8 1.0
OD1 D:ASN172 4.8 57.3 1.0
CA B:THR396 4.8 33.6 1.0

Magnesium binding site 3 out of 4 in 8ghf

Go back to Magnesium Binding Sites List in 8ghf
Magnesium binding site 3 out of 4 in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles


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 HSLO1 in Plasma Membrane Vesicles within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1504

b:24.6
occ:1.00
OE2 C:GLU399 2.4 42.4 1.0
OE2 C:GLU374 3.1 42.1 1.0
CD C:GLU399 3.6 40.4 1.0
CD C:GLU374 4.1 37.0 1.0
CG C:GLU399 4.2 33.1 1.0
O C:THR396 4.5 36.9 1.0
OE1 C:GLU374 4.5 40.1 1.0
ND2 A:ASN172 4.5 57.4 1.0
OE1 C:GLU399 4.6 37.0 1.0
O C:PHE395 4.7 46.8 1.0
C C:THR396 4.8 37.6 1.0
OD1 A:ASN172 4.8 54.9 1.0
CA C:THR396 4.8 32.1 1.0

Magnesium binding site 4 out of 4 in 8ghf

Go back to Magnesium Binding Sites List in 8ghf
Magnesium binding site 4 out of 4 in the Cryo-Em Structure of HSLO1 in Plasma Membrane Vesicles


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 HSLO1 in Plasma Membrane Vesicles within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1504

b:25.1
occ:1.00
OE2 D:GLU399 2.5 43.4 1.0
OE2 D:GLU374 3.2 44.0 1.0
CD D:GLU399 3.6 41.5 1.0
CD D:GLU374 4.1 38.3 1.0
CG D:GLU399 4.2 35.2 1.0
OE1 D:GLU374 4.4 41.8 1.0
O D:THR396 4.5 37.7 1.0
ND2 C:ASN172 4.5 59.5 1.0
OE1 D:GLU399 4.6 38.9 1.0
O D:PHE395 4.7 47.0 1.0
OD1 C:ASN172 4.8 57.3 1.0
C D:THR396 4.8 38.8 1.0
CA D:THR396 4.8 32.9 1.0

Reference:

X.Tao, C.Zhao, R.Mackinnon. Membrane Protein Isolation and Structure Determination in Cell-Derived Membrane Vesicles. Proc.Natl.Acad.Sci.Usa V. 120 25120 2023.
ISSN: ESSN 1091-6490
PubMed: 37098056
DOI: 10.1073/PNAS.2302325120
Page generated: Fri Jul 28 00:16:40 2023

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