Magnesium in PDB 3jcf: Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State

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Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State (pdb code 3jcf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 13 binding sites of Magnesium where determined in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State, PDB code: 3jcf:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:89.2 occ:1.00 OD2 E:ASP175 3.6 78.0 1.0 CA A:PRO14 3.9 80.4 1.0 O A:LEU12 4.0 85.1 1.0 N A:PRO14 4.3 83.3 1.0 O A:PRO13 4.4 90.2 1.0 CB A:PRO14 4.5 71.8 1.0 CG E:ASP175 4.5 79.6 1.0 OD1 E:ASP175 4.5 79.2 1.0 C A:PRO13 4.5 87.6 1.0 OE2 A:GLU88 4.7 96.2 1.0 CE1 E:HIS257 4.9 74.3 1.0 C A:PRO14 4.9 82.9 1.0 OD2 E:ASP253 5.0 78.1 1.0 O A:PRO14 5.0 86.1 1.0

Magnesium binding site 2 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:59.0 occ:1.00 OD1 E:ASP253 2.1 98.0 1.0 OD1 A:ASP89 2.1 98.4 1.0 OD2 E:ASP253 2.4 78.1 1.0 CG E:ASP253 2.5 91.8 1.0 OE1 A:GLU88 3.0 99.2 1.0 CG A:ASP89 3.2 90.2 1.0 NE2 E:HIS257 3.6 73.6 1.0 OD2 A:ASP89 3.7 82.7 1.0 CB E:ASP253 3.8 88.8 1.0 CD A:GLU88 4.1 0.2 1.0 NE2 A:GLN95 4.2 76.6 1.0 CE1 E:HIS257 4.3 74.3 1.0 CB A:ASP89 4.5 93.3 1.0 CD2 E:HIS257 4.5 75.0 1.0 O A:LEU85 4.6 78.9 1.0 OE2 A:GLU88 4.6 96.2 1.0 CA E:ASP253 4.6 80.6 1.0 CA A:ASP89 4.7 90.8 1.0 N A:ASP89 4.8 91.7 1.0 O E:ASP253 4.9 80.6 1.0 CD A:GLN95 4.9 93.6 1.0

Magnesium binding site 3 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:89.2 occ:1.00 OD2 A:ASP175 3.6 88.7 1.0 CA B:PRO14 3.9 99.3 1.0 O B:LEU12 4.0 0.3 1.0 N B:PRO14 4.3 0.3 1.0 O B:PRO13 4.4 0.1 1.0 CB B:PRO14 4.5 88.7 1.0 CG A:ASP175 4.5 90.3 1.0 OD1 A:ASP175 4.5 89.9 1.0 C B:PRO13 4.5 0.5 1.0 OE2 B:GLU88 4.7 0.9 1.0 CE1 A:HIS257 4.9 89.1 1.0 OD2 A:ASP253 4.9 91.1 1.0 C B:PRO14 4.9 0.9 1.0 O B:PRO14 5.0 0.0 1.0

Magnesium binding site 4 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:59.0 occ:1.00 OD1 A:ASP253 2.1 0.0 1.0 OD1 B:ASP89 2.1 0.3 1.0 OD2 A:ASP253 2.4 91.1 1.0 CG A:ASP253 2.4 0.9 1.0 OE1 B:GLU88 3.0 0.9 1.0 CG B:ASP89 3.2 0.1 1.0 NE2 A:HIS257 3.6 88.4 1.0 OD2 B:ASP89 3.7 0.6 1.0 CB A:ASP253 3.8 0.9 1.0 CD B:GLU88 4.1 0.9 1.0 NE2 B:GLN95 4.2 88.5 1.0 CE1 A:HIS257 4.4 89.1 1.0 CB B:ASP89 4.5 0.2 1.0 CD2 A:HIS257 4.6 89.8 1.0 O B:LEU85 4.6 0.5 1.0 CA A:ASP253 4.6 94.9 1.0 OE2 B:GLU88 4.6 0.9 1.0 CA B:ASP89 4.7 0.3 1.0 N B:ASP89 4.8 0.3 1.0 O A:ASP253 4.9 94.9 1.0 CD B:GLN95 4.9 0.5 1.0

Magnesium binding site 5 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg401 b:89.2 occ:1.00 OD2 B:ASP175 3.6 85.3 1.0 CA C:PRO14 3.9 75.6 1.0 O C:LEU12 4.0 92.7 1.0 N C:PRO14 4.3 78.5 1.0 O C:PRO13 4.4 93.0 1.0 CB C:PRO14 4.4 69.6 1.0 CG B:ASP175 4.5 86.8 1.0 OD1 B:ASP175 4.5 86.4 1.0 C C:PRO13 4.5 90.4 1.0 OE2 C:GLU88 4.7 91.2 1.0 CE1 B:HIS257 4.9 69.3 1.0 C C:PRO14 4.9 78.1 1.0 OD2 B:ASP253 4.9 75.5 1.0 O C:PRO14 5.0 81.3 1.0

Magnesium binding site 6 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg402 b:59.0 occ:1.00 OD1 B:ASP253 2.1 95.4 1.0 OD1 C:ASP89 2.1 89.1 1.0 OD2 B:ASP253 2.4 75.5 1.0 CG B:ASP253 2.4 89.3 1.0 OE1 C:GLU88 3.0 94.2 1.0 CG C:ASP89 3.2 80.8 1.0 NE2 B:HIS257 3.6 68.7 1.0 OD2 C:ASP89 3.7 73.4 1.0 CB B:ASP253 3.8 86.3 1.0 CD C:GLU88 4.1 99.2 1.0 NE2 C:GLN95 4.2 64.8 1.0 CE1 B:HIS257 4.3 69.3 1.0 CB C:ASP89 4.5 83.9 1.0 CD2 B:HIS257 4.6 70.1 1.0 O C:LEU85 4.6 74.2 1.0 OE2 C:GLU88 4.6 91.2 1.0 CA B:ASP253 4.6 79.4 1.0 CA C:ASP89 4.6 84.1 1.0 N C:ASP89 4.8 85.1 1.0 O B:ASP253 4.9 79.4 1.0 CD C:GLN95 4.9 81.8 1.0

Magnesium binding site 7 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg401 b:89.2 occ:1.00 OD2 C:ASP175 3.6 70.2 1.0 CA D:PRO14 3.9 78.5 1.0 O D:LEU12 4.0 81.4 1.0 N D:PRO14 4.3 81.5 1.0 O D:PRO13 4.4 88.8 1.0 CB D:PRO14 4.5 69.5 1.0 CG C:ASP175 4.5 71.8 1.0 OD1 C:ASP175 4.5 71.4 1.0 C D:PRO13 4.5 86.2 1.0 OE2 D:GLU88 4.7 0.6 1.0 CE1 C:HIS257 4.8 60.7 1.0 OD2 C:ASP253 4.9 71.9 1.0 C D:PRO14 4.9 81.0 1.0 O D:PRO14 5.0 84.2 1.0

Magnesium binding site 8 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:59.0 occ:1.00 OD1 C:ASP253 2.1 91.8 1.0 OD1 D:ASP89 2.1 0.9 1.0 OD2 C:ASP253 2.4 71.9 1.0 CG C:ASP253 2.5 85.6 1.0 OE1 D:GLU88 3.0 0.6 1.0 CG D:ASP89 3.2 97.7 1.0 NE2 C:HIS257 3.6 60.0 1.0 OD2 D:ASP89 3.7 90.2 1.0 CB C:ASP253 3.8 82.6 1.0 CD D:GLU88 4.1 0.6 1.0 NE2 D:GLN95 4.2 76.0 1.0 CE1 C:HIS257 4.4 60.7 1.0 CB D:ASP89 4.5 0.8 1.0 CD2 C:HIS257 4.5 61.4 1.0 O D:LEU85 4.6 88.5 1.0 OE2 D:GLU88 4.6 0.6 1.0 CA C:ASP253 4.6 75.2 1.0 CA D:ASP89 4.7 97.2 1.0 N D:ASP89 4.8 98.2 1.0 O C:ASP253 4.9 75.2 1.0 CD D:GLN95 4.9 93.0 1.0

Magnesium binding site 9 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg402 b:59.0 occ:1.00 OD1 D:ASP253 2.1 0.2 1.0 OD1 E:ASP89 2.1 0.5 1.0 OD2 D:ASP253 2.4 91.3 1.0 CG D:ASP253 2.5 0.0 1.0 OE1 E:GLU88 3.0 0.2 1.0 CG E:ASP89 3.2 96.3 1.0 NE2 D:HIS257 3.6 88.5 1.0 OD2 E:ASP89 3.7 88.8 1.0 CB D:ASP253 3.8 0.0 1.0 CD E:GLU88 4.1 0.2 1.0 NE2 E:GLN95 4.2 75.9 1.0 CE1 D:HIS257 4.3 89.2 1.0 CB E:ASP89 4.5 99.4 1.0 CD2 D:HIS257 4.5 89.9 1.0 O E:LEU85 4.6 89.0 1.0 OE2 E:GLU88 4.6 0.2 1.0 CA D:ASP253 4.6 95.8 1.0 CA E:ASP89 4.7 97.5 1.0 N E:ASP89 4.8 98.5 1.0 O D:ASP253 4.9 95.8 1.0 CD E:GLN95 4.9 92.9 1.0

Magnesium binding site 10 out of 13 in the Cryo-Em Structure of the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State


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 the Magnesium Channel Cora in the Closed Symmetric Magnesium-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg501 b:53.9 occ:1.00 MG E:MG502 3.6 53.9 1.0 O B:GLY312 3.7 22.6 1.0 O A:GLY312 3.8 21.0 1.0 O E:GLY312 3.9 21.4 1.0 O D:GLY312 3.9 17.3 1.0 O C:GLY312 3.9 19.3 1.0 C B:GLY312 4.6 18.5 1.0 C A:GLY312 4.7 16.9 1.0 C E:GLY312 4.7 17.2 1.0 C D:GLY312 4.8 13.2 1.0 C C:GLY312 4.8 15.2 1.0 CA B:GLY312 4.9 18.1 1.0

D.Matthies, O.Dalmas, M.J.Borgnia, P.K.Dominik, A.Merk, P.Rao, B.G.Reddy, S.Islam, A.Bartesaghi, E.Perozo, S.Subramaniam. Cryo-Em Structures of the Magnesium Channel Cora Reveal Symmetry Break Upon Gating. Cell(Cambridge,Mass.) V. 164 747 2016.
ISSN: ISSN 0092-8674
PubMed: 26871634
DOI: 10.1016/J.CELL.2015.12.055