Chlorine in PDB 6ix7: The Structure of Lepi C52A in Complex with Sah and Substrate Analogue

The structure of The Structure of Lepi C52A in Complex with Sah and Substrate Analogue, PDB code: 6ix7 was solved by Y.Cai, M.Ohashi, Y.Hai, Y.Tang, J.Zhou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.96 / 1.84
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	161.281, 62.133, 113.591, 90.00, 113.66, 90.00
R / Rfree (%)	18.1 / 19.1

The binding sites of Chlorine atom in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue (pdb code 6ix7). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue, PDB code: 6ix7:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of The Structure of Lepi C52A in Complex with Sah and Substrate Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl403 b:20.7 occ:1.00 N A:ASN243 3.2 23.9 1.0 O A:HOH708 3.3 18.9 1.0 CA A:TYR241 3.4 17.0 1.0 C A:TYR241 3.4 17.7 1.0 N A:GLN244 3.5 19.4 1.0 N A:PRO242 3.6 18.9 1.0 CB A:ASN243 3.7 22.6 1.0 CA A:ASN243 3.7 24.3 1.0 CG A:GLN244 3.7 18.1 1.0 CD A:PRO242 3.8 18.4 1.0 CB A:TYR241 3.8 16.5 1.0 C A:ASN243 3.8 25.4 1.0 O A:TYR241 3.9 17.7 1.0 CD1 A:TYR241 4.0 16.1 1.0 C A:PRO242 4.3 20.4 1.0 CB A:GLN244 4.4 17.6 1.0 CG A:TYR241 4.4 15.9 1.0 CA A:GLN244 4.4 21.9 1.0 CG A:ASN243 4.5 25.8 1.0 CA A:PRO242 4.6 19.0 1.0 CG A:PRO242 4.6 19.2 1.0 O A:LYS240 4.7 21.1 1.0 N A:TYR241 4.7 16.7 1.0 CD A:GLN244 4.7 17.3 1.0 NE2 A:GLN244 4.7 19.7 1.0 O A:ASN243 4.7 22.4 1.0 ND2 A:ASN243 4.9 28.0 1.0

Chlorine binding site 2 out of 4 in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of The Structure of Lepi C52A in Complex with Sah and Substrate Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl404 b:19.8 occ:1.00 O B:HOH648 2.9 20.9 1.0 NE2 B:GLN107 3.3 13.7 1.0 N A:ALA331 3.3 11.2 1.0 NH1 B:ARG97 3.3 16.6 1.0 N A:GLY330 3.5 11.7 1.0 O A:HOH604 3.5 32.0 1.0 CB A:ALA331 3.6 11.7 1.0 CG B:ARG97 3.7 12.1 1.0 CA A:LYS329 3.7 12.5 1.0 C A:LYS329 3.8 13.0 1.0 OE1 B:GLN107 3.9 13.8 1.0 CB B:ARG97 4.0 11.6 1.0 CD B:GLN107 4.0 12.0 1.0 CA A:ALA331 4.1 11.1 1.0 CD B:ARG97 4.1 12.3 1.0 C A:GLY330 4.3 15.2 1.0 CA A:GLY330 4.3 11.5 1.0 O A:GLU328 4.3 23.7 1.0 N A:LYS329 4.4 12.5 1.0 CZ B:ARG97 4.4 14.9 1.0 CA B:ARG97 4.6 15.3 1.0 C A:GLU328 4.6 21.8 1.0 O A:LYS329 4.7 16.9 1.0 NE B:ARG97 4.7 12.8 1.0 O A:PRO327 4.8 14.1 1.0 O A:HOH733 4.8 23.5 1.0 CB A:LYS329 4.8 13.0 1.0 O A:ALA331 4.9 13.4 1.0 O B:ARG97 4.9 13.4 1.0 C A:ALA331 5.0 10.7 1.0

Chlorine binding site 3 out of 4 in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of The Structure of Lepi C52A in Complex with Sah and Substrate Analogue within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl403 b:71.0 occ:1.00 O B:HOH609 3.0 21.2 1.0 O B:HOH726 3.2 19.6 1.0 O B:THR198 3.8 23.2 1.0 CB B:ARG197 3.9 17.1 1.0 NE B:ARG197 3.9 21.9 1.0 CZ B:ARG197 4.1 19.2 1.0 NH1 B:ARG197 4.1 18.9 1.0 CG B:ARG197 4.1 19.3 1.0 CD1 A:PHE41 4.2 16.0 1.0 CE1 A:PHE41 4.2 16.1 1.0 O B:HOH708 4.4 28.2 1.0 CG A:PHE41 4.5 12.2 1.0 O B:HOH761 4.5 24.4 1.0 N B:THR198 4.5 17.9 1.0 O A:HOH608 4.5 20.1 1.0 CZ A:PHE41 4.5 17.0 1.0 CD B:ARG197 4.6 19.9 1.0 C B:THR198 4.6 20.3 1.0 CA B:ARG197 4.7 18.9 1.0 O1 B:GOL405 4.7 27.5 1.0 CD2 A:PHE41 4.8 13.2 1.0 NH2 B:ARG197 4.8 17.2 1.0 CE2 A:PHE41 4.8 14.9 1.0 C B:ARG197 5.0 18.6 1.0

Chlorine binding site 4 out of 4 in the The Structure of Lepi C52A in Complex with Sah and Substrate Analogue


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of The Structure of Lepi C52A in Complex with Sah and Substrate Analogue within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl404 b:61.1 occ:1.00 O B:PHE205 3.4 21.1 1.0 C B:THR204 3.9 20.1 1.0 C B:PHE205 4.0 18.9 1.0 O B:SER203 4.0 18.5 1.0 O B:THR204 4.1 17.7 1.0 N B:PHE205 4.1 18.4 1.0 CA B:THR204 4.1 21.4 1.0 O B:HOH524 4.1 24.4 1.0 O B:LEU202 4.4 18.6 1.0 N B:PRO206 4.4 21.8 1.0 C B:SER203 4.4 18.6 1.0 CA B:PRO206 4.4 21.7 1.0 N B:THR204 4.5 16.8 1.0 CA B:PHE205 4.7 17.9 1.0 OH B:TYR241 4.8 26.3 1.0

Y.Cai, Y.Hai, M.Ohashi, C.S.Jamieson, M.Garcia-Borras, K.N.Houk, J.Zhou, Y.Tang. Structural Basis For Stereoselective Dehydration and Hydrogen-Bonding Catalysis By the Sam-Dependent Pericyclase Lepi. Nat.Chem. V. 11 812 2019.
ISSN: ESSN 1755-4349
PubMed: 31332284
DOI: 10.1038/S41557-019-0294-X