Chlorine in PDB 5dx5: Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes

All present enzymatic activity of Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes:
4.4.1.11;

The structure of Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes, PDB code: 5dx5 was solved by S.V.Revtovich, A.D.Nikulin, E.A.Morozova, N.V.Anufrieva, T.V.Demidkina, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.37
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	91.090, 91.090, 175.929, 90.00, 90.00, 90.00
R / Rfree (%)	16.2 / 22.5

The structure of Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Chlorine atom in the Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes (pdb code 5dx5). 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 Methionine Gamma-Lyase From Clostridium Sporogenes, PDB code: 5dx5:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes


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 Methionine Gamma-Lyase From Clostridium Sporogenes within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl502 b:58.4 occ:1.00 O A:HOH683 2.5 43.0 1.0 O A:HOH679 2.7 36.7 1.0 OH A:TYR113 3.2 37.2 1.0 C4A A:PLP501 3.6 32.0 1.0 CE1 A:TYR113 3.7 37.0 1.0 CZ A:TYR113 3.8 38.7 1.0 N A:SER341 4.1 37.1 1.0 CE1 B:TYR58 4.1 29.4 1.0 CZ B:TYR58 4.2 29.6 1.0 NZ A:LYS212 4.2 35.6 1.0 CA A:SER341 4.3 33.7 1.0 CE A:LYS212 4.3 29.3 1.0 OH B:TYR58 4.5 28.5 1.0 CG2 A:VAL340 4.5 33.4 1.0 CD1 B:TYR58 4.5 24.9 1.0 CE2 B:TYR58 4.6 25.3 1.0 CB A:VAL340 4.8 34.4 1.0 CD1 A:TYR113 4.9 34.2 1.0 C4 A:PLP501 4.9 28.9 1.0 CB A:SER341 4.9 30.3 1.0 O1P A:PLP501 4.9 23.8 1.0 CG B:TYR58 4.9 28.0 1.0 CD2 B:TYR58 5.0 28.4 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of Methionine Gamma-Lyase From Clostridium Sporogenes


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 Methionine Gamma-Lyase From Clostridium Sporogenes within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl502 b:47.3 occ:1.00 O B:HOH685 2.6 34.7 1.0 CD2 B:LEU342 3.5 24.5 1.0 C4A B:PLP501 3.5 27.8 1.0 N B:SER341 3.6 30.9 1.0 CA B:SER341 3.6 24.8 1.0 CE B:LYS212 3.7 25.8 1.0 NH2 B:ARG376 3.7 35.4 1.0 CE1 B:TYR113 3.9 31.8 1.0 NH1 B:ARG376 3.9 34.6 1.0 O3 B:PLP501 4.0 29.6 1.0 NZ B:LYS212 4.2 34.5 1.0 C B:SER341 4.2 26.8 1.0 ND2 B:ASN160 4.3 42.8 1.0 CZ B:ARG376 4.3 34.6 1.0 CD1 B:TYR113 4.4 33.1 1.0 O B:SER341 4.6 25.0 1.0 C4 B:PLP501 4.7 24.9 1.0 CZ B:TYR113 4.7 27.6 1.0 OH B:TYR113 4.8 26.6 1.0 CB B:VAL340 4.8 33.9 1.0 C3 B:PLP501 4.8 26.9 1.0 C B:VAL340 4.8 27.2 1.0 N B:LEU342 4.9 26.6 1.0 CG B:LEU342 4.9 28.4 1.0 CB B:SER341 4.9 23.0 1.0

S.Revtovich, N.Anufrieva, E.Morozova, V.Kulikova, A.Nikulin, T.Demidkina. Structure of Methionine Gamma-Lyase From Clostridium Sporogenes. Acta Crystallogr.,Sect.F V. 72 65 2016.
ISSN: ESSN 2053-230X
PubMed: 26750487
DOI: 10.1107/S2053230X15023869