Chlorine in PDB 8qj4: Receptor Sd-AMT1 (on-State)

The structure of Receptor Sd-AMT1 (on-State), PDB code: 8qj4 was solved by S.L.Andrade, T.Pflueger, M.Gschell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.09 / 1.70
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	115.098, 115.098, 275.718, 90, 90, 120
R / Rfree (%)	15 / 16.6

The binding sites of Chlorine atom in the Receptor Sd-AMT1 (on-State) (pdb code 8qj4). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Receptor Sd-AMT1 (on-State), PDB code: 8qj4:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Receptor Sd-AMT1 (on-State)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Receptor Sd-AMT1 (on-State) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl701 b:11.3 occ:1.00 ND2 A:ASN40 3.1 12.0 1.0 N A:GLU112 3.2 8.6 1.0 O A:HOH892 3.2 16.2 1.0 NZ A:LYS44 3.4 12.0 1.0 CG2 A:VAL41 3.5 7.8 1.0 CE A:LYS44 3.6 11.1 1.0 CA A:ALA111 3.8 8.8 1.0 CA A:GLU112 3.9 9.5 1.0 CD2 A:LEU395 4.0 11.6 1.0 C A:ALA111 4.0 8.6 1.0 CB A:ALA111 4.0 8.5 1.0 O A:ASN37 4.1 6.4 1.0 CG A:ASN40 4.1 10.6 1.0 N A:VAL41 4.3 6.4 1.0 CB A:ASN40 4.3 8.7 1.0 CB A:ASN37 4.3 7.3 1.0 CA A:VAL41 4.5 6.6 1.0 CD A:LYS44 4.6 9.4 1.0 CB A:VAL41 4.7 7.2 1.0 C A:ASN40 4.7 6.8 1.0 O A:HOH844 4.7 28.1 1.0 OE2 A:GLU29 4.7 5.5 0.4 CB A:LEU395 4.8 10.3 1.0 C A:GLU112 4.8 10.7 1.0 CG A:ASN37 4.8 8.1 1.0 OD1 A:ASN37 4.9 9.2 1.0 CG A:LEU395 4.9 11.3 1.0 CG A:GLU112 5.0 10.1 1.0 C A:ASN37 5.0 6.5 1.0 N A:ARG113 5.0 11.2 1.0

Chlorine binding site 2 out of 4 in the Receptor Sd-AMT1 (on-State)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Receptor Sd-AMT1 (on-State) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl702 b:2.4 occ:1.00 O A:HOH983 3.2 17.8 1.0 N A:PHE116 3.6 12.1 1.0 CG A:GLU399 3.7 36.8 1.0 N A:GLU399 3.8 27.6 1.0 CG1 A:VAL386 4.0 12.3 1.0 CA A:ARG115 4.0 13.7 1.0 CA A:GLY398 4.0 19.6 1.0 CG A:LEU395 4.1 11.3 1.0 CD2 A:LEU395 4.2 11.6 1.0 CB A:PHE116 4.3 12.5 1.0 C A:ARG115 4.3 12.8 1.0 OE2 A:GLU399 4.3 23.9 1.0 OD1 A:ASN40 4.3 15.1 1.0 CD A:GLU399 4.4 38.5 1.0 C A:GLY398 4.4 20.5 1.0 O A:GLU399 4.4 33.1 1.0 CB A:LEU395 4.5 10.3 1.0 CA A:PHE116 4.6 13.0 1.0 CB A:ARG115 4.6 17.3 1.0 O A:HOH844 4.6 28.1 1.0 CG1 A:VAL390 4.6 12.6 1.0 CA A:GLU399 4.7 33.5 1.0 CB A:GLU399 4.7 37.3 1.0 O A:MET114 4.7 13.5 1.0 O A:LEU395 4.7 11.1 1.0 CG A:ARG115 4.8 22.6 1.0 O A:HOH915 5.0 20.3 1.0 CG A:ASN40 5.0 10.6 1.0 N A:ARG115 5.0 13.0 1.0

Chlorine binding site 3 out of 4 in the Receptor Sd-AMT1 (on-State)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Receptor Sd-AMT1 (on-State) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl701 b:4.0 occ:1.00 O B:HOH990 3.1 22.4 1.0 CG B:GLU399 3.4 48.5 1.0 N B:PHE116 3.6 12.2 1.0 N B:GLU399 3.7 32.7 1.0 CA B:ARG115 4.0 14.4 1.0 O B:GLU399 4.0 36.0 1.0 CA B:GLY398 4.1 18.7 1.0 OE2 B:GLU399 4.1 25.4 1.0 CG1 B:VAL386 4.1 11.7 1.0 CB B:PHE116 4.2 12.7 1.0 CD B:GLU399 4.2 50.5 1.0 CG B:LEU395 4.3 12.5 1.0 C B:ARG115 4.3 12.4 1.0 C B:GLY398 4.4 23.4 1.0 CD2 B:LEU395 4.4 13.4 1.0 OD1 B:ASN40 4.4 13.1 1.0 CA B:GLU399 4.5 41.8 1.0 CB B:GLU399 4.5 47.9 1.0 CA B:PHE116 4.6 12.1 1.0 CB B:LEU395 4.6 11.0 1.0 O B:HOH939 4.7 38.3 1.0 CB B:ARG115 4.7 17.2 1.0 O B:HOH846 4.7 26.0 1.0 C B:GLU399 4.7 32.9 1.0 CG1 B:VAL390 4.7 12.8 1.0 O B:MET114 4.7 12.5 0.5 O B:LEU395 4.7 11.5 1.0 O B:MET114 4.7 12.7 0.5 O B:HOH885 5.0 18.9 1.0 CG B:ARG115 5.0 20.7 1.0

Chlorine binding site 4 out of 4 in the Receptor Sd-AMT1 (on-State)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Receptor Sd-AMT1 (on-State) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl702 b:10.9 occ:1.00 ND2 B:ASN40 3.1 11.8 1.0 N B:GLU112 3.1 8.8 1.0 O B:HOH924 3.1 15.9 1.0 NZ B:LYS44 3.4 12.5 1.0 CG2 B:VAL41 3.6 8.7 1.0 CE B:LYS44 3.7 11.7 1.0 CA B:ALA111 3.8 8.8 1.0 CA B:GLU112 3.9 9.6 1.0 CB B:ALA111 4.0 8.6 1.0 C B:ALA111 4.0 9.1 1.0 CD2 B:LEU395 4.1 13.4 1.0 CG B:ASN40 4.1 10.2 1.0 O B:ASN37 4.2 6.2 1.0 N B:VAL41 4.2 6.7 1.0 CB B:ASN40 4.3 8.4 1.0 CB B:ASN37 4.4 8.1 1.0 CA B:VAL41 4.5 6.9 1.0 CD B:LYS44 4.6 10.0 1.0 OE2 B:GLU29 4.7 5.4 0.4 C B:ASN40 4.7 6.9 1.0 O B:HOH846 4.7 26.0 1.0 CB B:VAL41 4.7 7.7 1.0 CB B:LEU395 4.8 11.0 1.0 C B:GLU112 4.8 10.3 1.0 OD1 B:ASN37 4.8 11.4 1.0 CG B:ASN37 4.9 9.4 1.0 CG B:GLU112 4.9 9.6 1.0 CG B:LEU395 5.0 12.5 1.0 N B:ARG113 5.0 10.5 1.0

T.Pfluger, M.Gschell, L.Zhang, V.Shnitsar, A.J.Zabadne, P.Zierep, S.Gunther, O.Einsle, S.L.A.Andrade. How Sensor Amt-Like Proteins Integrate Ammonium Signals. Sci Adv V. 10 M9441 2024.
ISSN: ESSN 2375-2548
PubMed: 38838143
DOI: 10.1126/SCIADV.ADM9441