Sodium in PDB 4ldo: Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody

All present enzymatic activity of Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody:
3.2.1.17;

The structure of Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody, PDB code: 4ldo was solved by A.M.Ring, A.Manglik, A.C.Kruse, M.D.Enos, W.I.Weis, K.C.Garcia, B.K.Kobilka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.27 / 3.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.670, 66.480, 303.100, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 25.4

The binding sites of Sodium atom in the Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody (pdb code 4ldo). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody, PDB code: 4ldo:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1403 b:94.3 occ:1.00 OD1 A:ASN1103 2.4 0.9 1.0 O A:CYS1190 2.4 83.2 1.0 O A:HOH1502 2.4 97.8 1.0 O A:GLU1187 2.4 98.0 1.0 O A:CYS1184 2.4 77.9 1.0 CG A:ASN1103 3.4 99.1 1.0 C A:CYS1190 3.5 79.0 1.0 C A:CYS1184 3.6 76.9 1.0 C A:GLU1187 3.6 90.8 1.0 CA A:TYR1185 4.0 81.7 1.0 O A:TYR1185 4.0 90.6 1.0 C A:TYR1185 4.1 87.0 1.0 CA A:CYS1190 4.1 76.7 1.0 ND2 A:ASN1103 4.1 98.3 1.0 CB A:CYS1190 4.2 76.7 1.0 N A:CYS1190 4.2 77.1 1.0 N A:TYR1185 4.2 77.4 1.0 CB A:ASN1103 4.3 94.0 1.0 SG A:CYS1184 4.5 0.2 1.0 N A:CYS1191 4.5 79.4 1.0 CA A:GLU1188 4.5 79.2 1.0 N A:GLU1188 4.5 87.4 1.0 N A:GLU1187 4.6 90.6 1.0 CA A:ASN1103 4.6 99.6 1.0 CA A:GLU1187 4.6 84.8 1.0 C A:GLU1188 4.6 78.9 1.0 O A:GLU1188 4.7 88.1 1.0 CA A:CYS1184 4.7 80.6 1.0 CA A:CYS1191 4.7 75.7 1.0 SG A:CYS1106 4.8 85.2 1.0 N A:ALA1186 4.9 86.6 1.0 CB A:GLU1187 5.0 85.6 1.0

Sodium binding site 2 out of 2 in the Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of BETA2 Adrenoceptor Bound to Adrenaline and An Engineered Nanobody within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1404 b:74.7 occ:1.00 OD1 A:ASN861 2.1 0.2 1.0 CG A:ASN861 3.2 0.1 1.0 ND2 A:ASN861 4.1 0.9 1.0 CB A:ASN861 4.2 0.7 1.0 CA A:ASN861 5.0 0.6 1.0

A.M.Ring, A.Manglik, A.C.Kruse, M.D.Enos, W.I.Weis, K.C.Garcia, B.K.Kobilka. Adrenaline-Activated Structure of Beta 2-Adrenoceptor Stabilized By An Engineered Nanobody. Nature V. 502 575 2013.
ISSN: ISSN 0028-0836
PubMed: 24056936
DOI: 10.1038/NATURE12572