Sodium in PDB 7fcs: Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe)

The structure of Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe), PDB code: 7fcs was solved by S.Cherakara, A.Kumar, K.Garai, B.Ghosh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.89 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	40.87, 53.493, 85.776, 90, 90, 90
R / Rfree (%)	18.8 / 21.6

The binding sites of Sodium atom in the Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe) (pdb code 7fcs). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe), PDB code: 7fcs:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:39.5 occ:1.00 OE2 A:GLU121 2.3 44.5 1.0 O A:HOH344 2.8 30.0 1.0 NH1 A:ARG114 2.9 25.3 1.0 CD A:GLU121 3.0 45.0 1.0 CA A:TYR118 3.2 24.4 1.0 CG A:GLU121 3.4 38.1 1.0 NH2 A:ARG114 3.6 25.7 1.0 CB A:GLU121 3.6 32.4 1.0 CZ A:ARG114 3.7 25.9 1.0 CD1 A:TYR118 3.7 24.1 1.0 CB A:TYR118 3.8 24.4 1.0 N A:TYR118 3.8 25.8 1.0 OE1 A:GLU121 4.0 51.5 1.0 O A:GLN117 4.1 26.7 1.0 C A:GLN117 4.2 26.7 1.0 CG A:TYR118 4.2 23.8 1.0 CD2 A:LEU133 4.2 30.9 1.0 OE1 A:GLN117 4.2 41.8 1.0 C A:TYR118 4.3 24.5 1.0 O A:TYR118 4.4 25.4 1.0 CG A:GLN117 4.4 32.9 1.0 CD A:GLN117 4.6 38.6 1.0 CE1 A:TYR118 4.8 24.5 1.0 NE A:ARG114 4.9 25.4 1.0 CB A:GLN117 5.0 29.6 1.0 CA A:GLU121 5.0 27.8 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:39.0 occ:1.00 NE A:ARG38 2.4 31.3 1.0 OD1 A:ASP35 2.7 23.4 1.0 NH2 A:ARG38 2.8 30.2 1.0 CZ A:ARG38 3.0 31.1 1.0 CD A:ARG38 3.5 27.5 1.0 CG A:ASP35 3.6 21.8 1.0 CA A:ASP35 4.1 19.1 1.0 CB A:ARG38 4.3 20.7 1.0 O A:HOH345 4.3 35.0 1.0 CB A:ASP35 4.3 20.4 1.0 NH1 A:ARG38 4.4 32.6 1.0 OD2 A:ASP35 4.4 23.3 1.0 CG A:ARG38 4.4 24.1 1.0 O A:HOH321 4.6 26.4 1.0 CD1 A:TRP34 4.7 22.1 1.0 N A:ASP35 4.8 19.4 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:32.2 occ:1.00 O A:HOH403 2.7 33.9 1.0 O A:SER129 2.9 25.1 1.0 N A:LEU133 3.0 26.1 1.0 N A:GLU132 3.3 28.3 1.0 CA A:THR130 3.4 23.1 1.0 C A:THR130 3.4 23.8 1.0 CB A:GLU132 3.4 37.7 1.0 CG A:LEU133 3.6 30.6 1.0 CA A:GLU132 3.7 30.8 1.0 N A:GLU131 3.7 25.1 1.0 C A:SER129 3.8 23.8 1.0 C A:GLU132 3.8 27.9 1.0 CB A:LEU133 3.8 27.3 1.0 O A:THR130 3.8 23.8 1.0 CA A:LEU133 4.0 25.8 1.0 O A:HOH338 4.0 36.9 1.0 N A:THR130 4.0 22.7 1.0 C A:GLU131 4.2 26.3 1.0 CE A:MET125 4.2 45.6 1.0 CD1 A:LEU133 4.3 32.1 1.0 CG A:GLU132 4.4 46.9 1.0 CA A:GLU131 4.5 27.4 1.0 CB A:THR130 4.6 23.9 1.0 CD2 A:LEU133 4.8 30.9 1.0 O A:GLU132 5.0 28.9 1.0

S.Cherakara, A.Kumar, K.Garai, B.Ghosh. Crystal Structure of the N-Terminal Domain of Mutants of Human Apolipoprotein-E (Apoe) To Be Published.