Zinc in PDB 4ifk: Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase

The structure of Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase, PDB code: 4ifk was solved by L.Huo, I.Davis, L.Chen, A.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.92 / 2.01
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	153.848, 49.062, 110.545, 90.00, 127.10, 90.00
R / Rfree (%)	20.9 / 26.3

The structure of Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase (pdb code 4ifk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase, PDB code: 4ifk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:24.5 occ:1.00 NE2 A:HIS11 2.2 23.0 1.0 NE2 A:HIS9 2.3 21.2 1.0 O A:HOH502 2.3 27.5 1.0 NE2 A:HIS177 2.3 23.3 1.0 OD2 A:ASP294 2.4 22.4 1.0 CD2 A:HIS11 3.1 24.0 1.0 CD2 A:HIS177 3.1 23.5 1.0 CE1 A:HIS11 3.2 22.1 1.0 CD2 A:HIS9 3.2 24.1 1.0 CE1 A:HIS9 3.2 24.9 1.0 CG A:ASP294 3.3 31.5 1.0 CE1 A:HIS177 3.5 27.4 1.0 NE2 A:HIS228 3.5 31.9 1.0 OD1 A:ASP294 3.7 34.2 1.0 O A:HOH582 3.9 38.2 1.0 CE1 A:HIS228 4.1 32.6 1.0 CG A:HIS11 4.2 22.8 1.0 ND1 A:HIS11 4.3 20.2 1.0 CG A:HIS177 4.3 25.8 1.0 ND1 A:HIS9 4.3 30.3 1.0 CG A:HIS9 4.3 23.9 1.0 ND1 A:HIS177 4.5 25.5 1.0 CB A:ASP294 4.5 25.8 1.0 CD2 A:HIS228 4.6 32.0 1.0 CA A:ASP294 4.7 22.0 1.0 O A:HOH567 4.9 46.0 1.0

Zinc binding site 2 out of 2 in the Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Arginines 51 and 239* From A Neighboring Subunit Are Essential For Catalysis in A Zinc-Dependent Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:38.1 occ:1.00 OD2 B:ASP294 2.2 34.5 1.0 NE2 B:HIS177 2.3 33.5 1.0 NE2 B:HIS9 2.4 37.9 1.0 NE2 B:HIS11 2.4 40.1 1.0 CD2 B:HIS177 3.0 36.5 1.0 CD2 B:HIS11 3.1 38.1 1.0 CG B:ASP294 3.2 39.9 1.0 CE1 B:HIS9 3.2 43.7 1.0 CD2 B:HIS9 3.3 42.3 1.0 CE1 B:HIS177 3.4 40.6 1.0 CE1 B:HIS11 3.5 43.6 1.0 OD1 B:ASP294 3.6 42.4 1.0 CE1 B:HIS228 3.7 42.1 1.0 CG B:HIS177 4.3 40.4 1.0 NE2 B:HIS228 4.3 41.2 1.0 ND1 B:HIS9 4.3 39.0 1.0 CG B:HIS11 4.3 41.7 1.0 ND1 B:HIS177 4.4 37.9 1.0 CG B:HIS9 4.4 41.3 1.0 CB B:ASP294 4.5 39.3 1.0 ND1 B:HIS11 4.5 43.4 1.0 ND1 B:HIS228 4.6 44.0 1.0 CA B:ASP294 4.8 40.3 1.0 CE1 B:PHE297 5.0 49.7 1.0

L.Huo, I.Davis, L.Chen, A.Liu. The Power of Two: Arginine 51 and Arginine 239* From A Neighboring Subunit Are Essential For Catalysis in Alpha-Amino-Beta-Carboxymuconate-Epsilon-Semialdehyde Decarboxylase. J.Biol.Chem. V. 288 30862 2013.
ISSN: ISSN 0021-9258
PubMed: 24019523
DOI: 10.1074/JBC.M113.496869