Sodium in PDB 4d1d: Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin.

The structure of Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin., PDB code: 4d1d was solved by S.Weyand, F.Brueckner, T.Geng, D.Drew, S.Iwata, P.J.F.Henderson, A.D.Cameron, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.777 / 3.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	87.600, 106.900, 106.800, 90.00, 90.00, 90.00
R / Rfree (%)	25.57 / 30.77

The binding sites of Sodium atom in the Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin. (pdb code 4d1d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin., PDB code: 4d1d:

Sodium binding site 1 out of 1 in the Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of MHP1, A Nucleobase-Cation-Symport-1 Family Transporter with the Inhibitor 5-(2-Naphthylmethyl)-L-Hydantoin. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1471 b:0.1 occ:1.00 O A:ALA309 2.3 0.6 1.0 OG1 A:THR313 2.3 0.9 1.0 O A:ALA38 2.4 0.2 1.0 OG A:SER312 2.6 0.8 1.0 O A:ILE41 2.6 0.1 1.0 N A:THR313 3.0 0.8 1.0 C A:SER312 3.1 0.4 1.0 CB A:SER312 3.1 0.5 1.0 CB A:THR313 3.1 0.8 1.0 C A:ALA309 3.3 0.8 1.0 CA A:SER312 3.5 0.7 1.0 CA A:THR313 3.6 0.9 1.0 C A:ALA38 3.6 0.8 1.0 N A:SER312 3.7 0.2 1.0 O A:SER312 3.7 0.7 1.0 C A:ILE41 3.7 0.2 1.0 CA A:ALA309 3.8 0.3 1.0 CA A:MET39 4.1 0.2 1.0 N A:MET39 4.3 0.9 1.0 N A:THR310 4.3 0.1 1.0 C A:MET39 4.4 0.1 1.0 O A:MET39 4.4 0.3 1.0 O A:LEU308 4.4 0.4 1.0 CA A:ILE41 4.5 0.6 1.0 CG2 A:THR313 4.5 0.2 1.0 C A:THR310 4.5 0.2 1.0 O A:THR310 4.5 0.4 1.0 N A:ILE41 4.5 0.8 1.0 CB A:GLN42 4.6 0.3 1.0 CB A:ILE41 4.6 0.6 1.0 CD1 A:LEU175 4.6 0.5 1.0 CA A:THR310 4.6 0.4 1.0 CB A:ALA309 4.6 0.1 1.0 CA A:ALA38 4.7 1.0 1.0 N A:GLN42 4.7 0.1 1.0 CA A:GLN42 4.8 0.7 1.0 C A:TRP311 4.8 0.8 1.0 N A:TRP311 5.0 0.5 1.0 N A:ALA309 5.0 0.0 1.0 C A:THR313 5.0 0.6 1.0 CB A:ALA38 5.0 0.4 1.0

K.J.Simmons, S.M.Jackson, F.Brueckner, S.G.Patching, O.Beckstein, E.Ivanova, T.Geng, S.Weyand, D.Drew, J.Lanigan, D.J.Sharples, M.S.Sansom, S.Iwata, C.W.Fishwick, A.P.Johnson, A.D.Cameron, P.J.Henderson. Molecular Mechanism of Ligand Recognition By Membrane Transport Protein, MHP1. Embo J. V. 33 1831 2014.
ISSN: ISSN 0261-4189
PubMed: 24952894
DOI: 10.15252/EMBJ.201387557