Chlorine in PDB 5x2q: Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine

The structure of Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine, PDB code: 5x2q was solved by N.Nuemket, N.Yasui, N.Atsumi, A.Yamashita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.28 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	98.517, 112.724, 128.685, 90.00, 92.16, 90.00
R / Rfree (%)	15.4 / 23

The structure of Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine also contains other interesting chemical elements:

Calcium	(Ca)	1 atom
Sodium	(Na)	5 atoms

The binding sites of Chlorine atom in the Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine (pdb code 5x2q). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine, PDB code: 5x2q:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl971 b:46.9 occ:1.00 OG1 B:THR105 3.1 31.3 1.0 N B:SER149 3.3 40.1 1.0 N B:GLN148 3.4 48.5 1.0 CB B:SER149 3.6 33.7 1.0 CD B:PRO45 3.6 38.9 1.0 CB B:GLN148 3.6 37.5 1.0 CG B:MET152 3.7 37.2 1.0 CB B:THR105 3.8 29.7 1.0 CA B:GLN148 3.9 44.0 1.0 CG2 B:THR105 3.9 39.7 1.0 CB B:PRO147 3.9 29.4 1.0 CG B:PRO45 4.0 40.1 1.0 CB B:PRO45 4.0 34.5 1.0 C B:GLN148 4.1 39.3 1.0 N B:PRO45 4.1 37.6 1.0 CA B:SER149 4.1 33.2 1.0 CG B:ARG107 4.2 56.4 1.0 CB B:MET152 4.3 33.4 1.0 C B:PRO147 4.3 42.2 1.0 CA B:PRO45 4.5 36.6 1.0 CA B:PRO147 4.5 33.0 1.0 C B:PHE44 4.6 35.1 1.0 OG B:SER149 4.8 42.0 1.0 CG B:GLN148 4.8 38.4 1.0 CA B:ARG107 4.9 38.3 1.0 CD B:ARG107 4.9 62.7 1.0 NE B:ARG107 4.9 71.7 1.0 N B:ARG107 5.0 37.6 1.0

Chlorine binding site 2 out of 3 in the Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl971 b:41.3 occ:1.00 O C:HOH1047 3.0 25.4 1.0 O C:HOH1024 3.0 24.1 1.0 N C:LYS295 3.1 26.9 1.0 CE C:LYS265 3.5 32.9 1.0 ND2 C:ASN294 3.7 27.6 1.0 CA C:ASN294 3.8 22.6 1.0 CG C:ASN294 3.9 30.8 1.0 NZ C:LYS265 3.9 40.7 1.0 C C:ASN294 3.9 19.4 1.0 CB C:LYS295 4.1 26.2 1.0 CB C:ASP362 4.1 29.3 1.0 CA C:LYS295 4.1 28.8 1.0 OD1 C:ASN294 4.3 18.7 1.0 N C:LYS296 4.3 25.2 1.0 CG C:PRO66 4.3 16.7 1.0 CB C:ASN294 4.4 29.4 1.0 CG C:LYS295 4.4 26.6 1.0 CD C:LYS265 4.5 25.8 1.0 O C:HOH1044 4.7 30.1 1.0 C C:LYS295 4.7 21.7 1.0 CD C:PRO66 4.7 21.3 1.0 OD2 C:ASP362 4.7 35.1 1.0 CG C:LYS265 4.8 23.3 1.0 OE2 C:GLU269 4.8 57.2 1.0 O C:LEU293 4.8 22.8 1.0 N C:ASP362 4.8 23.8 1.0 O C:HOH1076 4.9 23.8 1.0 CB C:PRO66 4.9 16.9 1.0 N C:ASN294 4.9 18.8 1.0 CG C:ASP362 4.9 32.5 1.0

Chlorine binding site 3 out of 3 in the Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the Medaka Fish Taste Receptor T1R2A-T1R3 Ligand Binding Domains in Complex with Glycine within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl971 b:43.1 occ:1.00 OG1 D:THR105 3.0 26.8 1.0 N D:GLN148 3.3 26.3 1.0 CD D:PRO45 3.6 20.4 1.0 CG2 D:THR105 3.6 35.4 1.0 CB D:PRO147 3.7 24.1 1.0 CB D:THR105 3.7 28.0 1.0 CB D:GLN148 3.8 23.4 1.0 CB D:PRO45 3.8 23.9 1.0 N D:PRO45 3.8 24.7 1.0 CG D:MET152 3.8 21.5 1.0 N D:SER149 3.8 24.7 1.0 CG D:PRO45 3.9 22.7 1.0 CA D:GLN148 4.0 21.4 1.0 CB D:MET152 4.2 20.7 1.0 C D:PRO147 4.2 24.1 1.0 CA D:PRO45 4.2 25.9 1.0 C D:PHE44 4.2 29.8 1.0 CA D:PRO147 4.3 19.3 1.0 OG D:SER149 4.4 38.5 1.0 C D:GLN148 4.4 24.0 1.0 CB D:SER149 4.6 31.1 1.0 CA D:PHE44 4.7 26.5 1.0 O D:PHE44 4.8 42.8 1.0 CA D:SER149 4.8 27.1 1.0 CG D:PRO147 4.9 27.2 1.0 O D:LEU43 4.9 28.6 1.0

N.Nuemket, N.Yasui, Y.Kusakabe, Y.Nomura, N.Atsumi, S.Akiyama, E.Nango, Y.Kato, M.K.Kaneko, J.Takagi, M.Hosotani, A.Yamashita. Structural Basis For Perception of Diverse Chemical Substances By T1R Taste Receptors Nat Commun V. 8 15530 2017.
ISSN: ESSN 2041-1723
PubMed: 28534491
DOI: 10.1038/NCOMMS15530