Sodium in PDB 1cm5: Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli

All present enzymatic activity of Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli:
2.3.1.54;

The structure of Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli, PDB code: 1cm5 was solved by A.Becker, K.Fritz-Wolf, W.Kabsch, J.Knappe, S.Schultz, A.F.V.Wagner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.30
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	159.059, 159.059, 159.784, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 25.1

The binding sites of Sodium atom in the Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli (pdb code 1cm5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli, PDB code: 1cm5:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1056 b:52.5 occ:1.00 OE1 A:GLU700 2.3 56.0 1.0 O A:ALA652 2.4 47.6 1.0 O A:GLY701 2.4 49.6 1.0 O A:LEU654 2.4 45.8 1.0 C A:GLY701 3.4 50.1 1.0 CD A:GLU700 3.4 56.8 1.0 C A:ALA652 3.5 48.0 1.0 O A:HOH1331 3.5 42.2 1.0 C A:LEU654 3.6 46.0 1.0 CG A:GLU700 3.9 57.5 1.0 N A:GLY701 4.0 53.5 1.0 CB A:GLU700 4.0 57.1 1.0 O A:HOH1163 4.1 61.2 1.0 CA A:ALA652 4.2 47.8 1.0 CA A:GLY701 4.2 51.4 1.0 N A:LEU654 4.2 47.3 1.0 C A:LYS653 4.2 48.2 1.0 N A:PHE656 4.2 45.2 1.0 N A:GLY702 4.2 48.9 1.0 CA A:GLY702 4.4 47.6 1.0 N A:PRO655 4.4 45.9 1.0 O A:LYS653 4.4 48.2 1.0 N A:LYS653 4.5 48.1 1.0 CA A:LEU654 4.5 46.4 1.0 CA A:PRO655 4.5 45.6 1.0 OE2 A:GLU700 4.5 57.0 1.0 C A:GLU700 4.6 55.1 1.0 CA A:LYS653 4.7 48.9 1.0 O A:VAL651 4.7 48.2 1.0 CB A:PHE656 4.8 45.0 1.0 C A:PRO655 4.9 45.5 1.0 C A:GLY702 4.9 46.8 1.0 CA A:GLU700 4.9 57.0 1.0 CB A:ALA652 5.0 48.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of C418A,C419A Mutant of Pfl From E.Coli within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1057 b:76.5 occ:1.00 O B:GLY701 2.3 53.4 1.0 O B:LEU654 2.6 50.3 1.0 OE1 B:GLU700 2.7 58.3 1.0 O B:ALA652 3.3 53.4 1.0 C B:GLY701 3.4 53.6 1.0 CD B:GLU700 3.7 58.3 1.0 C B:LEU654 3.9 50.5 1.0 CA B:GLY702 3.9 51.2 1.0 N B:PHE656 4.0 50.0 1.0 N B:GLY702 4.1 52.3 1.0 CB B:PHE656 4.1 49.2 1.0 C B:ALA652 4.1 52.8 1.0 C B:GLY702 4.1 50.5 1.0 N B:GLN703 4.2 49.1 1.0 CG B:GLU700 4.3 58.9 1.0 CD1 B:ILE663 4.4 43.7 1.0 CA B:ALA652 4.5 52.6 1.0 N B:GLY701 4.6 56.5 1.0 CA B:GLY701 4.6 54.8 1.0 CA B:PHE656 4.6 49.7 1.0 O B:VAL651 4.7 52.4 1.0 OE2 B:GLU700 4.7 58.3 1.0 N B:PRO655 4.7 50.1 1.0 CD2 B:LEU404 4.8 45.0 1.0 C B:PRO655 4.8 50.1 1.0 CA B:PRO655 4.8 50.1 1.0 CB B:GLN703 4.8 47.6 1.0 CB B:GLU700 4.8 59.3 1.0 N B:LEU654 4.8 51.8 1.0 CA B:LEU654 4.8 50.9 1.0 O B:GLY702 4.9 50.2 1.0

A.Becker, K.Fritz-Wolf, W.Kabsch, J.Knappe, S.Schultz, A.F.Volker Wagner. Structure and Mechanism of the Glycyl Radical Enzyme Pyruvate Formate-Lyase. Nat.Struct.Biol. V. 6 969 1999.
ISSN: ISSN 1072-8368
PubMed: 10504733
DOI: 10.1038/13341