Chlorine in PDB 7ea4: Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C

The structure of Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C, PDB code: 7ea4 was solved by M.Yamasaki, Y.Sumida, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.93 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	62.057, 129.806, 200.68, 90, 90, 90
R / Rfree (%)	16.4 / 20.8

The structure of Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C also contains other interesting chemical elements:

Arsenic	(As)	2 atoms
Calcium	(Ca)	2 atoms

The binding sites of Chlorine atom in the Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C (pdb code 7ea4). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C, PDB code: 7ea4:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C


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 L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl909 b:24.9 occ:1.00 O A:HOH1211 2.9 26.2 1.0 N A:LEU488 3.2 12.5 1.0 N A:ASP486 3.3 15.9 1.0 N A:GLY487 3.3 12.1 1.0 O A:HOH1020 3.4 24.1 1.0 N A:PHE489 3.4 12.9 1.0 CD1 A:TRP485 3.7 16.0 1.0 C A:ASP486 3.8 17.5 1.0 CA A:ASP486 3.8 15.5 1.0 CB A:ASP486 3.9 16.4 1.0 CB A:TRP485 3.9 15.6 1.0 CA A:LEU488 4.0 13.7 1.0 CD2 A:PHE489 4.0 17.3 1.0 C A:GLY487 4.0 16.6 1.0 CA A:GLY487 4.0 13.6 1.0 CG A:PRO222 4.1 18.7 1.0 CB A:PHE489 4.1 14.7 1.0 O A:THR220 4.1 22.9 1.0 C A:LEU488 4.1 15.3 1.0 CB A:LEU488 4.2 12.5 1.0 O A:PHE489 4.2 13.3 1.0 CG A:TRP485 4.2 13.9 1.0 C A:TRP485 4.2 16.5 1.0 CA A:PHE489 4.3 13.5 1.0 CA A:TRP485 4.4 14.6 1.0 CD A:PRO222 4.6 18.6 1.0 CG A:PHE489 4.6 17.1 1.0 C A:PHE489 4.7 13.1 1.0 O A:HOH1315 4.7 32.3 1.0 OD2 A:ASP486 4.7 29.5 1.0 CG A:ASP486 4.7 26.7 1.0 O A:ASP486 4.7 15.0 1.0 NE1 A:TRP485 5.0 12.3 1.0 CG A:LEU488 5.0 14.1 1.0 HO1 A:CAD904 5.0 50.5 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C


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 L182E D-Succinylase (Dsa) From Cupriavidus Sp. P4-10-C within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl905 b:23.9 occ:1.00 O B:HOH1070 2.9 18.4 1.0 N B:ASP486 3.2 15.9 1.0 N B:LEU488 3.3 13.3 1.0 N B:GLY487 3.3 17.3 1.0 O B:HOH1048 3.4 24.0 1.0 N B:PHE489 3.4 17.9 1.0 CD1 B:TRP485 3.8 14.3 1.0 CA B:ASP486 3.8 18.0 1.0 C B:ASP486 3.8 21.1 1.0 CB B:ASP486 3.9 18.7 1.0 CB B:TRP485 3.9 12.0 1.0 CD2 B:PHE489 4.0 20.9 1.0 O B:THR220 4.0 23.6 1.0 CA B:LEU488 4.0 19.3 1.0 CA B:GLY487 4.1 17.7 1.0 C B:GLY487 4.1 17.1 1.0 CG B:PRO222 4.1 18.7 1.0 CB B:PHE489 4.1 12.9 1.0 C B:LEU488 4.1 16.5 1.0 CB B:LEU488 4.2 16.2 1.0 C B:TRP485 4.2 19.2 1.0 O B:PHE489 4.2 14.5 1.0 CA B:PHE489 4.3 15.3 1.0 CG B:TRP485 4.3 14.2 1.0 CA B:TRP485 4.4 16.8 1.0 CG B:PHE489 4.6 16.5 1.0 CD B:PRO222 4.6 17.1 1.0 C B:PHE489 4.7 11.1 1.0 OD2 B:ASP486 4.7 35.9 1.0 CG B:ASP486 4.8 37.1 1.0 O B:ASP486 4.9 23.8 1.0 CG B:LEU488 5.0 17.2 1.0

Y.Sumida, M.Yamasaki, Y.Nishiya, S.Kumagai, T.Yamada, M.Azuma. Protein Engineering of D-Succinylase From Cupriavidus Sp. For D-Amino Acid Synthesis and the Structural Implications. Adv.Synth.Catal. V. 363 4770 2021.
ISSN: ESSN 1615-4169
DOI: 10.1002/ADSC.202100587