Sodium in PDB 7nam: LRP6_E1 in Complex with Lr-Eet-3.5

The structure of LRP6_E1 in Complex with Lr-Eet-3.5, PDB code: 7nam was solved by S.Hansen, R.N.Hannoush, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.12 / 1.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	108.89, 46.94, 87.79, 90, 124.34, 90
R / Rfree (%)	17 / 19.3

The binding sites of Sodium atom in the LRP6_E1 in Complex with Lr-Eet-3.5 (pdb code 7nam). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the LRP6_E1 in Complex with Lr-Eet-3.5, PDB code: 7nam:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the LRP6_E1 in Complex with Lr-Eet-3.5


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of LRP6_E1 in Complex with Lr-Eet-3.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:22.6 occ:1.00 O A:HOH536 2.3 23.1 1.0 O A:ILE143 2.3 25.4 1.0 O A:HOH670 2.3 22.3 1.0 O A:HOH615 2.3 23.5 1.0 O A:HOH673 2.4 21.3 1.0 H A:ILE143 3.4 24.7 1.0 O A:LEU100 3.5 24.3 1.0 C A:ILE143 3.5 21.9 1.0 HB2 A:ALA101 3.6 27.6 1.0 HA A:ALA144 3.7 27.9 1.0 HE1 A:HIS272 3.7 36.2 1.0 HG23 A:ILE143 4.0 32.6 1.0 O A:HOH533 4.0 26.3 1.0 HB2 A:ALA144 4.0 30.1 1.0 O A:HOH559 4.1 20.1 1.0 NE2 A:HIS272 4.1 27.0 1.0 N A:ILE143 4.1 20.6 1.0 CE1 A:HIS272 4.2 30.2 1.0 HA A:ALA101 4.3 24.9 1.0 N A:ALA144 4.3 23.7 1.0 CA A:ALA144 4.4 23.2 1.0 O A:HOH601 4.4 21.2 1.0 CB A:ALA101 4.4 23.0 1.0 CA A:ILE143 4.4 19.8 1.0 C A:LEU100 4.5 23.7 1.0 O A:HOH558 4.5 26.5 1.0 HG22 A:ILE143 4.5 32.6 1.0 OD2 A:ASP270 4.6 22.6 1.0 O A:HOH650 4.6 24.3 1.0 HB1 A:ALA101 4.6 27.6 1.0 CG2 A:ILE143 4.7 27.2 1.0 CB A:ALA144 4.7 25.1 1.0 HB1 A:ALA142 4.7 26.3 1.0 O A:LEU187 4.8 25.6 1.0 CA A:ALA101 4.8 20.7 1.0 H A:LEU100 4.8 23.7 1.0 OD2 A:ASP57 4.9 22.6 1.0 OD1 A:ASP270 4.9 19.9 1.0

Sodium binding site 2 out of 2 in the LRP6_E1 in Complex with Lr-Eet-3.5


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of LRP6_E1 in Complex with Lr-Eet-3.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:25.4 occ:1.00 O A:ASP138 2.3 28.8 1.0 O A:SER114 2.3 23.1 1.0 O A:HOH534 2.4 31.4 1.0 OD1 A:ASN117 2.4 30.9 1.0 O A:HOH645 2.5 36.0 1.0 HD21 A:ASN117 3.1 38.4 1.0 CG A:ASN117 3.3 29.7 1.0 C A:SER114 3.4 22.3 1.0 C A:ASP138 3.4 28.4 1.0 HA A:GLU115 3.6 30.3 1.0 ND2 A:ASN117 3.6 32.0 1.0 HA A:ASP138 3.6 34.3 1.0 O A:HOH532 3.7 61.6 1.0 OD1 A:ASP138 4.0 37.6 1.0 HA A:GLN139 4.1 28.9 1.0 HA A:SER114 4.1 25.4 1.0 CA A:ASP138 4.1 28.6 1.0 NE2 A:GLN139 4.1 33.6 1.0 HB2 A:SER114 4.2 25.4 1.0 HE22 A:GLN139 4.2 40.4 1.0 N A:GLU115 4.2 23.5 1.0 CA A:GLU115 4.3 25.3 1.0 HD2 A:PRO140 4.3 26.9 1.0 HE21 A:GLN139 4.3 40.4 1.0 CA A:SER114 4.3 21.2 1.0 CD A:GLN139 4.3 32.4 1.0 HG2 A:GLN139 4.4 31.8 1.0 HD22 A:ASN117 4.4 38.4 1.0 O A:GLU115 4.5 27.5 1.0 N A:GLN139 4.5 25.4 1.0 O A:HOH588 4.6 58.2 1.0 C A:GLU115 4.6 22.9 1.0 OE1 A:GLN139 4.7 34.2 1.0 H A:ASN117 4.7 28.0 1.0 HA A:ASN117 4.7 27.3 1.0 CB A:SER114 4.7 21.1 1.0 CB A:ASN117 4.7 26.7 1.0 CA A:GLN139 4.8 24.1 1.0 CG A:GLN139 4.9 26.5 1.0 O A:HOH562 4.9 36.0 1.0 CG A:ASP138 5.0 32.5 1.0

S.Hansen, Y.Zhang, S.Hwang, A.Nabhan, W.Li, J.Fuhrmann, Y.Kschonsak, A.H.Nile, X.Gao, R.Piskol, F.De Sousa E Melo, F.J.De Sauvage, R.N.Hannoush. A Modular Platform For Targeted High Affinity Peptide Agonists and Antagonists in Tissue Regeneration To Be Published.