Calcium in PDB 5dbr: CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate

The structure of CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate, PDB code: 5dbr was solved by C.N.Johnson, M.K.Thompson, W.J.Chazin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.30 / 2.25
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	58.086, 58.086, 102.638, 90.00, 90.00, 120.00
R / Rfree (%)	22 / 28.4

The binding sites of Calcium atom in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate (pdb code 5dbr). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate, PDB code: 5dbr:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:32.5 occ:1.00 OE2 A:GLU31 2.2 34.9 1.0 OD1 A:ASP20 2.2 30.9 1.0 OD1 A:ASP24 2.3 40.9 1.0 O A:THR26 2.3 35.6 1.0 OE1 A:GLU31 2.5 36.1 1.0 OD1 A:ASP22 2.5 39.1 1.0 CD A:GLU31 2.7 34.5 1.0 CG A:ASP24 3.4 35.6 1.0 CG A:ASP22 3.4 38.7 1.0 CG A:ASP20 3.5 32.8 1.0 C A:THR26 3.5 37.4 1.0 OD2 A:ASP22 3.9 45.9 1.0 CG2 A:THR26 3.9 48.3 1.0 OD2 A:ASP24 4.0 43.5 1.0 N A:ASP24 4.1 37.1 1.0 CG A:GLU31 4.2 34.9 1.0 N A:ASP22 4.2 38.2 1.0 CA A:ASP20 4.2 33.8 1.0 N A:THR26 4.2 38.0 1.0 OD2 A:ASP20 4.3 32.6 1.0 CA A:THR26 4.4 37.2 1.0 CB A:ASP24 4.4 33.3 1.0 CB A:ASP20 4.4 31.8 1.0 C A:ASP20 4.4 36.8 1.0 N A:GLY23 4.4 36.0 1.0 N A:ILE27 4.5 34.9 1.0 CB A:ASP22 4.5 37.3 1.0 CA A:ILE27 4.6 32.4 1.0 CA A:ASP24 4.6 36.2 1.0 N A:LYS21 4.6 37.8 1.0 CA A:ASP22 4.7 34.6 1.0 CB A:THR26 4.8 46.5 1.0 N A:GLY25 4.8 42.6 1.0 O A:ASP20 4.8 39.5 1.0 C A:ASP22 4.8 37.8 1.0 C A:ASP24 4.9 40.0 1.0

Calcium binding site 2 out of 4 in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:40.2 occ:1.00 OD1 A:ASN97 2.1 51.7 1.0 O A:TYR99 2.2 36.5 1.0 OD1 A:ASP93 2.4 43.7 1.0 OE2 A:GLU104 2.4 43.4 1.0 O A:HOH310 2.4 41.9 1.0 OD1 A:ASP95 2.4 44.6 1.0 OE1 A:GLU104 2.5 40.4 1.0 CD A:GLU104 2.8 39.8 1.0 CG A:ASN97 3.2 53.3 1.0 CG A:ASP95 3.3 42.9 1.0 C A:TYR99 3.5 33.6 1.0 OD2 A:ASP95 3.6 48.7 1.0 CG A:ASP93 3.6 38.5 1.0 ND2 A:ASN97 4.0 52.7 1.0 N A:ASN97 4.2 46.8 1.0 CG A:GLU104 4.2 40.3 1.0 CB A:ASN97 4.2 49.4 1.0 N A:TYR99 4.2 35.9 1.0 N A:ASP95 4.3 38.6 1.0 N A:ILE100 4.4 40.2 1.0 OD2 A:ASP93 4.4 39.2 1.0 CA A:TYR99 4.4 37.8 1.0 CA A:ASP93 4.4 29.9 1.0 CA A:ILE100 4.4 35.5 1.0 CB A:ASP93 4.5 32.3 1.0 C A:ASP93 4.5 34.8 1.0 N A:GLY96 4.5 43.6 1.0 CB A:ASP95 4.5 45.8 1.0 N A:SER101 4.6 32.2 1.0 CA A:ASN97 4.6 48.4 1.0 N A:LYS94 4.7 32.6 1.0 CA A:ASP95 4.8 39.4 1.0 CB A:TYR99 4.8 40.2 1.0 C A:ASP95 4.8 41.0 1.0 N A:GLY98 4.9 43.3 1.0 O A:ASP93 4.9 36.5 1.0 C A:ASN97 5.0 48.2 1.0 CB A:GLU104 5.0 38.0 1.0

Calcium binding site 3 out of 4 in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca203 b:40.3 occ:1.00 OD1 A:ASP56 2.1 27.6 1.0 O A:HOH301 2.4 33.5 1.0 O A:THR62 2.4 39.9 1.0 OE2 A:GLU67 2.5 40.6 1.0 OE1 A:GLU67 2.5 38.5 1.0 OD1 A:ASN60 2.6 37.0 1.0 OD1 A:ASP58 2.6 43.8 1.0 CD A:GLU67 2.8 41.3 1.0 CG A:ASN60 3.2 38.0 1.0 CG A:ASP58 3.2 41.7 1.0 OD2 A:ASP58 3.4 38.2 1.0 CG A:ASP56 3.4 36.2 1.0 ND2 A:ASN60 3.5 37.4 1.0 C A:THR62 3.7 43.5 1.0 N A:ASN60 4.2 39.0 1.0 CA A:ASP56 4.2 43.4 1.0 OD2 A:ASP56 4.3 34.8 1.0 CB A:ASP56 4.3 40.9 1.0 CB A:ASN60 4.3 37.0 1.0 CG A:GLU67 4.4 39.1 1.0 N A:ASP58 4.4 47.5 1.0 N A:THR62 4.5 38.2 1.0 N A:ASP64 4.5 30.3 1.0 CB A:ASP58 4.5 41.7 1.0 CA A:ILE63 4.5 32.4 1.0 N A:ILE63 4.5 33.0 1.0 C A:ASP56 4.5 46.6 1.0 N A:GLY59 4.6 40.8 1.0 N A:GLY61 4.7 38.8 1.0 CA A:ASN60 4.7 36.4 1.0 CA A:THR62 4.7 44.5 1.0 OG1 A:THR62 4.7 44.6 1.0 N A:ALA57 4.7 52.4 1.0 CA A:ASP58 4.8 44.3 1.0 C A:ASP58 4.8 42.7 1.0 OD2 A:ASP64 4.9 37.5 1.0 C A:ILE63 4.9 32.5 1.0 C A:ASN60 5.0 37.9 1.0 CG A:ASP64 5.0 36.5 1.0

Calcium binding site 4 out of 4 in the CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of CA2+ Cam with Human Cardiac Na+ Channel (NAV1.5) Inactivation Gate within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca204 b:41.5 occ:1.00 O A:GLN135 2.2 36.5 1.0 OD1 A:ASP129 2.3 40.0 1.0 OD1 A:ASP133 2.3 50.2 1.0 OE1 A:GLU140 2.4 39.9 1.0 OE2 A:GLU140 2.5 43.4 1.0 O A:HOH302 2.5 39.4 1.0 OD1 A:ASP131 2.5 51.3 1.0 CD A:GLU140 2.8 39.8 1.0 CG A:ASP133 3.3 55.1 1.0 CG A:ASP131 3.3 51.3 1.0 CG A:ASP129 3.4 40.3 1.0 C A:GLN135 3.4 40.2 1.0 OD2 A:ASP131 3.5 53.3 1.0 OD2 A:ASP133 3.7 49.7 1.0 N A:GLN135 4.1 38.7 1.0 N A:ASP133 4.1 47.0 1.0 OD2 A:ASP129 4.2 42.3 1.0 CA A:ASP129 4.2 38.4 1.0 CB A:ASP129 4.2 38.4 1.0 N A:VAL136 4.3 37.8 1.0 N A:ASP131 4.3 49.3 1.0 CA A:GLN135 4.3 41.2 1.0 CA A:VAL136 4.3 32.9 1.0 CG A:GLU140 4.3 40.0 1.0 CB A:ASP133 4.4 51.6 1.0 N A:ASN137 4.5 36.7 1.0 C A:ASP129 4.5 39.2 1.0 N A:GLY132 4.5 48.9 1.0 CB A:ASP131 4.5 47.9 1.0 CA A:ASP133 4.7 47.0 1.0 N A:ILE130 4.7 41.2 1.0 CA A:ASP131 4.7 49.9 1.0 C A:ASP131 4.8 53.2 1.0 N A:GLY134 4.8 40.4 1.0 CB A:GLN135 4.9 45.3 1.0 C A:VAL136 4.9 32.1 1.0 C A:ASP133 5.0 41.5 1.0

C.N.Johnson, M.K.Thompson, M.Voehler, W.J.Chazin. Enhanced Understanding of CA2+ Modulation of the Human Cardiac Sodium Channel: Tight Binding of Calmodulin to the Inactivation Gate To Be Published.