Calcium in PDB 6zbi: Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1

The binding sites of Calcium atom in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1 (pdb code 6zbi). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1, PDB code: 6zbi:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:0.0 occ:1.00 O A:THR26 1.8 0.0 1.0 OD1 A:ASP20 1.8 0.0 1.0 OD1 A:ASP24 1.8 0.0 1.0 OE2 A:GLU31 1.8 0.0 1.0 OD1 A:ASP22 2.1 0.0 1.0 CD A:GLU31 2.6 0.0 1.0 OE1 A:GLU31 2.7 0.0 1.0 H A:THR26 3.0 0.0 1.0 CG A:ASP24 3.0 0.0 1.0 C A:THR26 3.0 0.0 1.0 H A:ASP24 3.0 0.0 1.0 CG A:ASP20 3.0 0.0 1.0 CG A:ASP22 3.1 0.0 1.0 HA A:ILE27 3.3 0.0 1.0 OD2 A:ASP22 3.4 0.0 1.0 OD2 A:ASP24 3.6 0.0 1.0 HA A:ASP20 3.6 0.0 1.0 N A:THR26 3.7 0.0 1.0 OD2 A:ASP20 3.7 0.0 1.0 H A:ASP22 3.7 0.0 1.0 HB A:THR26 3.8 0.0 1.0 CA A:THR26 3.9 0.0 1.0 N A:ASP24 3.9 0.0 1.0 N A:ILE27 4.0 0.0 1.0 CG A:GLU31 4.0 0.0 1.0 HG12 A:ILE27 4.0 0.0 1.0 H A:GLY25 4.1 0.0 1.0 CA A:ILE27 4.1 0.0 1.0 H A:GLY23 4.1 0.0 1.0 CB A:ASP24 4.1 0.0 1.0 CB A:ASP20 4.1 0.0 1.0 CA A:ASP20 4.3 0.0 1.0 HG3 A:GLU31 4.3 0.0 1.0 HG13 A:ILE27 4.3 0.0 1.0 CB A:THR26 4.4 0.0 1.0 CA A:ASP24 4.4 0.0 1.0 N A:GLY25 4.4 0.0 1.0 CB A:ASP22 4.4 0.0 1.0 HB3 A:ASP24 4.5 0.0 1.0 N A:GLY23 4.5 0.0 1.0 HB2 A:ASP20 4.5 0.0 1.0 N A:ASP22 4.5 0.0 1.0 H A:THR28 4.6 0.0 1.0 C A:ASP24 4.6 0.0 1.0 HG2 A:GLU31 4.6 0.0 1.0 CG1 A:ILE27 4.7 0.0 1.0 C A:ASP20 4.7 0.0 1.0 HB2 A:GLU31 4.8 0.0 1.0 HA A:THR26 4.8 0.0 1.0 C A:GLY25 4.8 0.0 1.0 HG23 A:THR26 4.8 0.0 1.0 CA A:ASP22 4.8 0.0 1.0 HB3 A:GLU31 4.8 0.0 1.0 CB A:GLU31 4.9 0.0 1.0 C A:ASP22 4.9 0.0 1.0 H A:ILE27 4.9 0.0 1.0 HB3 A:ASP22 4.9 0.0 1.0

Calcium binding site 2 out of 4 in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca202 b:0.0 occ:1.00 OD1 A:ASN60 1.7 0.0 1.0 O A:THR62 1.8 0.0 1.0 OD1 A:ASP56 1.8 0.0 1.0 OD1 A:ASP58 1.9 0.0 1.0 OE1 A:GLU67 2.5 0.0 1.0 OE2 A:GLU67 2.6 0.0 1.0 H A:ASN60 2.8 0.0 1.0 H A:THR62 2.8 0.0 1.0 CD A:GLU67 2.8 0.0 1.0 CG A:ASN60 2.9 0.0 1.0 C A:THR62 3.0 0.0 1.0 CG A:ASP56 3.0 0.0 1.0 CG A:ASP58 3.1 0.0 1.0 HA A:ILE63 3.4 0.0 1.0 HD22 A:ASN60 3.5 0.0 1.0 N A:THR62 3.5 0.0 1.0 HA A:ASP56 3.6 0.0 1.0 OD2 A:ASP58 3.6 0.0 1.0 ND2 A:ASN60 3.7 0.0 1.0 OD2 A:ASP56 3.7 0.0 1.0 N A:ASN60 3.7 0.0 1.0 H A:ASP58 3.7 0.0 1.0 H A:ASP64 3.8 0.0 1.0 CA A:THR62 3.8 0.0 1.0 H A:GLY59 3.8 0.0 1.0 H A:GLY61 3.9 0.0 1.0 OD2 A:ASP64 4.0 0.0 1.0 N A:ILE63 4.0 0.0 1.0 CB A:ASN60 4.0 0.0 1.0 CB A:ASP56 4.1 0.0 1.0 OG1 A:THR62 4.1 0.0 1.0 CA A:ILE63 4.2 0.0 1.0 CA A:ASN60 4.2 0.0 1.0 N A:GLY61 4.2 0.0 1.0 N A:GLY59 4.3 0.0 1.0 CA A:ASP56 4.3 0.0 1.0 CB A:ASP58 4.3 0.0 1.0 HB3 A:ASN60 4.3 0.0 1.0 CG A:GLU67 4.3 0.0 1.0 C A:ASN60 4.4 0.0 1.0 N A:ASP64 4.5 0.0 1.0 HB2 A:ASP58 4.5 0.0 1.0 N A:ASP58 4.5 0.0 1.0 HB2 A:ASP56 4.5 0.0 1.0 HD21 A:ASN60 4.6 0.0 1.0 CG A:ASP64 4.6 0.0 1.0 CB A:THR62 4.6 0.0 1.0 C A:GLY61 4.7 0.0 1.0 HA A:THR62 4.7 0.0 1.0 HG3 A:GLU67 4.7 0.0 1.0 C A:ASP56 4.7 0.0 1.0 CA A:ASP58 4.7 0.0 1.0 C A:ASP58 4.7 0.0 1.0 C A:GLY59 4.8 0.0 1.0 C A:ILE63 4.8 0.0 1.0 HG2 A:GLU67 4.8 0.0 1.0 HA2 A:GLY59 4.9 0.0 1.0 H A:ALA57 4.9 0.0 1.0 CA A:GLY59 4.9 0.0 1.0 H A:ILE63 4.9 0.0 1.0 HB2 A:ASN60 4.9 0.0 1.0 HG1 A:THR62 5.0 0.0 1.0 N A:ALA57 5.0 0.0 1.0

Calcium binding site 3 out of 4 in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca203 b:0.0 occ:1.00 OD1 A:ASN97 1.7 0.0 1.0 O A:TYR99 1.8 0.0 1.0 OD1 A:ASP93 1.8 0.0 1.0 OE2 A:GLU104 1.9 0.0 1.0 OD1 A:ASP95 2.1 0.0 1.0 CD A:GLU104 2.6 0.0 1.0 OE1 A:GLU104 2.7 0.0 1.0 CG A:ASN97 2.9 0.0 1.0 H A:ASN97 2.9 0.0 1.0 H A:TYR99 3.0 0.0 1.0 C A:TYR99 3.0 0.0 1.0 CG A:ASP93 3.1 0.0 1.0 CG A:ASP95 3.1 0.0 1.0 HA A:ILE100 3.2 0.0 1.0 OD2 A:ASP95 3.4 0.0 1.0 HA A:ASP93 3.4 0.0 1.0 HD22 A:ASN97 3.5 0.0 1.0 ND2 A:ASN97 3.7 0.0 1.0 N A:TYR99 3.7 0.0 1.0 OD2 A:ASP93 3.8 0.0 1.0 N A:ASN97 3.8 0.0 1.0 H A:ASP95 3.8 0.0 1.0 CA A:TYR99 3.9 0.0 1.0 N A:ILE100 4.0 0.0 1.0 CA A:ILE100 4.1 0.0 1.0 CG A:GLU104 4.1 0.0 1.0 H A:GLY98 4.1 0.0 1.0 H A:GLY96 4.1 0.0 1.0 CB A:ASN97 4.1 0.0 1.0 H A:SER101 4.1 0.0 1.0 CB A:ASP93 4.1 0.0 1.0 CA A:ASP93 4.2 0.0 1.0 HB2 A:TYR99 4.3 0.0 1.0 HG3 A:GLU104 4.3 0.0 1.0 CA A:ASN97 4.4 0.0 1.0 HB3 A:ASN97 4.4 0.0 1.0 N A:GLY98 4.4 0.0 1.0 N A:GLY96 4.4 0.0 1.0 CB A:ASP95 4.5 0.0 1.0 HB2 A:ASP93 4.5 0.0 1.0 HG12 A:ILE100 4.5 0.0 1.0 C A:ASN97 4.6 0.0 1.0 N A:ASP95 4.6 0.0 1.0 HG2 A:GLU104 4.6 0.0 1.0 HD21 A:ASN97 4.6 0.0 1.0 C A:ASP93 4.7 0.0 1.0 N A:SER101 4.7 0.0 1.0 CB A:TYR99 4.7 0.0 1.0 HA A:TYR99 4.8 0.0 1.0 HG13 A:ILE100 4.8 0.0 1.0 C A:GLY98 4.8 0.0 1.0 CA A:ASP95 4.9 0.0 1.0 C A:ASP95 4.9 0.0 1.0 C A:ILE100 4.9 0.0 1.0 H A:ILE100 4.9 0.0 1.0 HB2 A:GLU104 4.9 0.0 1.0 C A:GLY96 4.9 0.0 1.0 H A:LYS94 4.9 0.0 1.0 CB A:GLU104 5.0 0.0 1.0 HB2 A:ASN97 5.0 0.0 1.0 N A:LYS94 5.0 0.0 1.0

Calcium binding site 4 out of 4 in the Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Ternary Complex of Calmodulin Bound to 2 Molecules of NHE1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca204 b:0.0 occ:1.00 O A:GLN135 1.8 0.0 1.0 OD1 A:ASP129 1.8 0.0 1.0 OD1 A:ASP133 1.8 0.0 1.0 OD1 A:ASP131 1.9 0.0 1.0 OE2 A:GLU140 2.3 0.0 1.0 OE1 A:GLU140 2.6 0.0 1.0 CD A:GLU140 2.8 0.0 1.0 H A:ASP133 2.9 0.0 1.0 H A:GLN135 2.9 0.0 1.0 C A:GLN135 3.0 0.0 1.0 CG A:ASP133 3.0 0.0 1.0 CG A:ASP131 3.0 0.0 1.0 CG A:ASP129 3.0 0.0 1.0 HA A:VAL136 3.3 0.0 1.0 HA A:ASP129 3.5 0.0 1.0 OD2 A:ASP131 3.6 0.0 1.0 N A:GLN135 3.6 0.0 1.0 OD2 A:ASP133 3.6 0.0 1.0 H A:ASP131 3.7 0.0 1.0 H A:GLY132 3.7 0.0 1.0 N A:ASP133 3.8 0.0 1.0 OD2 A:ASP129 3.8 0.0 1.0 H A:ASN137 3.9 0.0 1.0 CA A:GLN135 3.9 0.0 1.0 H A:GLY134 4.0 0.0 1.0 N A:VAL136 4.0 0.0 1.0 CA A:VAL136 4.1 0.0 1.0 CB A:ASP129 4.1 0.0 1.0 CB A:ASP133 4.2 0.0 1.0 HB2 A:GLN135 4.2 0.0 1.0 CA A:ASP129 4.2 0.0 1.0 N A:GLY132 4.2 0.0 1.0 CB A:ASP131 4.3 0.0 1.0 N A:GLY134 4.3 0.0 1.0 CG A:GLU140 4.3 0.0 1.0 CA A:ASP133 4.3 0.0 1.0 N A:ASP131 4.4 0.0 1.0 N A:ASN137 4.5 0.0 1.0 C A:ASP133 4.5 0.0 1.0 HB2 A:ASP131 4.5 0.0 1.0 HB3 A:ASP133 4.5 0.0 1.0 HB2 A:ASP129 4.6 0.0 1.0 C A:ASP129 4.6 0.0 1.0 CB A:GLN135 4.6 0.0 1.0 H A:ILE130 4.6 0.0 1.0 HG23 A:VAL136 4.7 0.0 1.0 CA A:ASP131 4.7 0.0 1.0 HG3 A:GLU140 4.7 0.0 1.0 C A:GLY134 4.7 0.0 1.0 HA A:GLN135 4.7 0.0 1.0 C A:ASP131 4.7 0.0 1.0 C A:VAL136 4.7 0.0 1.0 C A:GLY132 4.8 0.0 1.0 N A:ILE130 4.8 0.0 1.0 HG2 A:GLU140 4.8 0.0 1.0 CG A:ASN137 4.9 0.0 1.0 HA2 A:GLY132 4.9 0.0 1.0 ND2 A:ASN137 4.9 0.0 1.0 OD1 A:ASN137 4.9 0.0 1.0 HD22 A:ASN137 4.9 0.0 1.0 H A:VAL136 4.9 0.0 1.0 CA A:GLY132 4.9 0.0 1.0 HB2 A:GLU140 5.0 0.0 1.0

L.M.Sjogaard-Frich, A.Prestel, E.S.Pedersen, M.Severin, K.K.Kristensen, J.G.Olsen, B.B.Kragelund, S.F.Pedersen. Dynamic Na + /H + Exchanger 1 (NHE1):Calmodulin Complexes of Varying Stoichiometry and Structure Regulate Ca 2+ -Dependent NHE1 Activation. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 33655882
DOI: 10.7554/ELIFE.60889