Calcium in PDB 8sgt: Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)

The binding sites of Calcium atom in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) (pdb code 8sgt). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+), PDB code: 8sgt:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:68.8 occ:1.00 OD2 A:ASP421 2.1 84.7 1.0 OE2 A:GLU451 2.5 36.6 1.0 OD1 A:ASP421 2.5 84.7 1.0 CG A:ASP421 2.6 84.7 1.0 OE2 A:GLU454 3.0 72.8 1.0 CD A:GLU451 3.6 36.6 1.0 CD A:GLU454 3.9 72.8 1.0 OE1 A:GLU454 4.0 72.8 1.0 CB A:ASP421 4.1 84.7 1.0 ND2 A:ASN417 4.3 97.3 1.0 OE1 A:GLU451 4.4 36.6 1.0 CA A:CA1002 4.4 51.0 1.0 CG A:GLU451 4.6 36.6 1.0 OE2 A:GLU660 4.8 83.0 1.0 N A:ASN417 5.0 97.3 1.0 CA A:ASP421 5.0 84.7 1.0

Calcium binding site 2 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:51.0 occ:1.00 OD1 A:ASP421 2.3 84.7 1.0 OE1 A:GLU451 2.3 36.6 1.0 OE2 A:GLU385 2.6 66.4 1.0 CD A:GLU451 3.2 36.6 1.0 OE2 A:GLU451 3.3 36.6 1.0 CG A:ASP421 3.4 84.7 1.0 CD A:GLU385 3.7 66.4 1.0 OE1 A:GLU454 3.8 72.8 1.0 CB A:ASP421 3.8 84.7 1.0 CA A:CA1004 3.9 47.8 1.0 CA A:ASP421 4.1 84.7 1.0 CG A:GLU385 4.1 66.4 1.0 CA A:CA1001 4.4 68.8 1.0 O A:ILE445 4.4 85.0 1.0 OD2 A:ASP421 4.4 84.7 1.0 OD2 A:ASP447 4.5 56.5 1.0 CG A:GLU451 4.6 36.6 1.0 O A:ASP421 4.6 84.7 1.0 CG2 A:ILE496 4.6 79.1 1.0 O A:SER420 4.7 97.5 1.0 OD1 A:ASP447 4.7 56.5 1.0 OE1 A:GLU385 4.7 66.4 1.0 CD A:GLU454 4.9 72.8 1.0 C A:ASP421 4.9 84.7 1.0 CB A:GLU451 5.0 36.6 1.0

Calcium binding site 3 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1003 b:81.1 occ:1.00 OE1 A:GLU385 2.2 66.4 1.0 OD1 A:ASP500 2.4 44.8 1.0 OD1 A:ASP446 2.5 66.7 1.0 O A:ASP447 2.5 56.5 1.0 OD2 A:ASP500 2.6 44.8 1.0 CG A:ASP500 2.8 44.8 1.0 CD A:GLU385 3.5 66.4 1.0 CG A:ASP446 3.5 66.7 1.0 C A:ASP447 3.7 56.5 1.0 OD1 A:ASP499 3.8 56.3 1.0 OD2 A:ASP446 3.9 66.7 1.0 CA A:CA1004 4.1 47.8 1.0 OD2 A:ASP499 4.1 56.3 1.0 N A:ASP447 4.1 56.5 1.0 CG A:ASP499 4.2 56.3 1.0 CB A:ASP500 4.2 44.8 1.0 CG A:GLU385 4.3 66.4 1.0 CB A:GLU385 4.3 66.4 1.0 OE2 A:GLU385 4.4 66.4 1.0 OD1 A:ASP498 4.5 54.7 1.0 CZ A:PHE621 4.5 55.5 1.0 CE1 A:PHE621 4.5 55.5 1.0 CA A:ASP447 4.6 56.5 1.0 N A:ASP448 4.6 41.1 1.0 CA A:ASP448 4.7 41.1 1.0 OD1 A:ASP447 4.8 56.5 1.0 N A:ASP500 4.8 44.8 1.0 CA A:ASP500 4.8 44.8 1.0 CB A:ASP446 4.8 66.7 1.0 N A:ASP499 4.9 56.3 1.0 C A:ASP499 5.0 56.3 1.0

Calcium binding site 4 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1004 b:47.8 occ:1.00 OE2 A:GLU385 2.2 66.4 1.0 OD2 A:ASP500 2.5 44.8 1.0 OD1 A:ASP447 2.6 56.5 1.0 O A:ILE449 2.6 34.8 1.0 OE1 A:GLU451 2.7 36.6 1.0 OE1 A:GLU385 2.7 66.4 1.0 OD1 A:ASP498 2.8 54.7 1.0 CD A:GLU385 2.8 66.4 1.0 CD A:GLU451 3.6 36.6 1.0 CG A:ASP500 3.7 44.8 1.0 CG A:ASP447 3.8 56.5 1.0 C A:ILE449 3.8 34.8 1.0 CG A:ASP498 3.9 54.7 1.0 CA A:CA1002 3.9 51.0 1.0 CG A:GLU451 4.0 36.6 1.0 CA A:CA1003 4.1 81.1 1.0 O A:ASP447 4.1 56.5 1.0 N A:ILE449 4.1 34.8 1.0 CG A:GLU385 4.3 66.4 1.0 OD2 A:ASP447 4.3 56.5 1.0 CB A:ASP500 4.4 44.8 1.0 C A:ASP447 4.5 56.5 1.0 CA A:ILE449 4.5 34.8 1.0 CB A:GLU451 4.5 36.6 1.0 OE2 A:GLU451 4.6 36.6 1.0 CB A:ASP498 4.7 54.7 1.0 OD1 A:ASP500 4.7 44.8 1.0 N A:ASP447 4.7 56.5 1.0 OD2 A:ASP498 4.7 54.7 1.0 N A:GLU451 4.8 36.6 1.0 CB A:ILE449 4.8 34.8 1.0 C A:ASP448 4.9 41.1 1.0 N A:PHE450 4.9 31.2 1.0 CB A:ASP447 4.9 56.5 1.0 CA A:ASP447 4.9 56.5 1.0 N A:ASP448 5.0 41.1 1.0 C A:PHE450 5.0 31.2 1.0

Calcium binding site 5 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1005 b:101.2 occ:1.00 OD1 A:ASP578 2.4 116.4 1.0 OE1 A:GLU516 2.5 90.3 1.0 OE2 A:GLU683 2.5 122.6 1.0 OE1 A:GLU683 2.6 122.6 1.0 O A:GLU580 2.7 154.3 1.0 CD A:GLU683 2.9 122.6 1.0 OE2 A:GLU516 3.2 90.3 1.0 CD A:GLU516 3.2 90.3 1.0 CG A:ASP578 3.5 116.4 1.0 O A:ASP578 3.8 116.4 1.0 C A:GLU580 3.9 154.3 1.0 OD2 A:ASP578 4.0 116.4 1.0 N A:GLU582 4.3 166.1 1.0 CG A:GLU683 4.4 122.6 1.0 C A:ASP578 4.5 116.4 1.0 CA A:TYR581 4.5 186.6 1.0 N A:ASP578 4.7 116.4 1.0 CG A:GLU516 4.7 90.3 1.0 N A:TYR581 4.7 186.6 1.0 CB A:ASP578 4.8 116.4 1.0 CA A:ASP578 4.9 116.4 1.0 CB A:GLU582 4.9 166.1 1.0 N A:GLU580 4.9 154.3 1.0 C A:TYR581 4.9 186.6 1.0 CA A:GLU580 5.0 154.3 1.0

Calcium binding site 6 out of 6 in the Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo-Em Structure of Human NCX1 in CA2+ Bound, Activated State (Group II in the Presence of 0.5 Mm CA2+) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1006 b:183.7 occ:1.00 OD2 A:ASP578 2.7 116.4 1.0 CG A:ASP578 3.2 116.4 1.0 CG A:ASP552 3.3 78.1 1.0 OD1 A:ASP552 3.4 78.1 1.0 OD2 A:ASP552 3.4 78.1 1.0 OE2 A:GLU516 3.8 90.3 1.0 OD1 A:ASP578 3.8 116.4 1.0 CB A:ASP578 3.8 116.4 1.0 CB A:ASP552 3.9 78.1 1.0 OE1 A:GLU582 4.4 166.1 1.0 CA A:ASP552 4.5 78.1 1.0 O A:ILE576 4.6 92.3 1.0 O A:GLU551 4.6 72.3 1.0 NZ A:LYS585 4.7 103.8 1.0 CD A:LYS585 4.7 103.8 1.0 N A:ASP578 4.9 116.4 1.0 CE A:LYS585 5.0 103.8 1.0 CA A:ASP578 5.0 116.4 1.0

J.Xue, Y.Han, W.Zeng, Y.Jiang. Structural Mechanisms of Human Cardiac Sodium Calcium Exchanger NCX1 To Be Published.