Rubidium in PDB 1dge: An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase

All present enzymatic activity of An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase:
4.1.1.64;

The structure of An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase, PDB code: 1dge was solved by E.Hohenester, J.N.Jansonius, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.80
Space group	P 64 2 2
Cell size a, b, c (Å), α, β, γ (°)	153.500, 153.500, 86.600, 90.00, 90.00, 120.00
R / Rfree (%)	n/a / n/a

The binding sites of Rubidium atom in the An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase (pdb code 1dge). This binding sites where shown within 5.0 Angstroms radius around Rubidium atom.
In total 2 binding sites of Rubidium where determined in the An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase, PDB code: 1dge:
Jump to Rubidium binding site number: 1; 2;

Rubidium binding site 1 out of 2 in the An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 1 of An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb435 b:24.3 occ:0.57 O A:PRO99 2.3 26.9 1.0 O A:LEU102 2.7 21.4 1.0 O A:ALA95 2.7 26.7 1.0 O A:THR98 2.9 24.6 1.0 C A:PRO99 3.1 24.0 1.0 O A:HOH576 3.1 45.0 1.0 OG1 A:THR98 3.4 17.9 1.0 N A:PRO100 3.6 23.7 1.0 C A:THR98 3.6 23.3 1.0 CA A:PRO100 3.7 21.9 1.0 C A:LEU102 3.8 20.3 1.0 C A:ALA95 3.9 23.1 1.0 N A:LEU102 3.9 24.9 1.0 N A:GLY101 4.1 21.6 1.0 CA A:PRO99 4.1 21.5 1.0 N A:PRO99 4.2 22.5 1.0 C A:PRO100 4.2 21.8 1.0 CA A:LEU102 4.3 21.3 1.0 CB A:LEU102 4.4 21.7 1.0 CB A:THR98 4.5 18.8 1.0 CA A:THR98 4.5 21.9 1.0 CA A:ALA95 4.6 18.0 1.0 N A:THR98 4.6 23.9 1.0 OD1 A:ASP103 4.7 33.5 1.0 CD A:PRO100 4.9 22.9 1.0 N A:ASP103 4.9 20.0 1.0 N A:ASN96 4.9 20.9 1.0 C A:GLY101 5.0 27.8 1.0

Rubidium binding site 2 out of 2 in the An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 2 of An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb436 b:25.1 occ:1.00 OD1 A:ASP307 2.5 21.5 1.0 OG A:SER80 2.6 16.8 1.0 O A:THR303 2.8 28.5 1.0 O A:VAL305 2.8 19.1 1.0 O A:LEU78 2.8 22.2 1.0 O A:HOH531 3.0 25.2 1.0 CG A:ASP307 3.4 23.7 1.0 CB A:SER80 3.7 19.8 1.0 C A:THR303 3.7 24.5 1.0 N A:SER80 3.8 23.6 1.0 CA A:SER80 3.8 23.6 1.0 C A:VAL305 3.9 19.7 1.0 OD2 A:ASP307 3.9 25.8 1.0 C A:LEU78 4.0 21.0 1.0 N A:VAL305 4.0 17.9 1.0 C A:HIS304 4.0 18.9 1.0 CA A:HIS304 4.1 21.5 1.0 O A:SER306 4.2 20.9 1.0 C A:PHE79 4.2 21.6 1.0 N A:HIS304 4.3 22.3 1.0 CG1 A:VAL305 4.3 20.4 1.0 C A:SER306 4.4 20.1 1.0 CE1 A:HIS77 4.4 17.3 1.0 O A:PHE79 4.5 20.3 1.0 CB A:ASP307 4.5 22.7 1.0 ND1 A:HIS77 4.5 17.0 1.0 O A:HIS304 4.6 18.8 1.0 CA A:VAL305 4.6 18.4 1.0 N A:LEU78 4.6 21.3 1.0 N A:ASP307 4.6 21.2 1.0 CA A:ASP307 4.7 21.8 1.0 O A:THR302 4.8 25.3 1.0 CA A:THR303 4.8 21.4 1.0 CA A:PHE79 4.8 21.4 1.0 CA A:LEU78 4.9 21.2 1.0 N A:PHE79 4.9 21.1 1.0 N A:SER306 4.9 20.0 1.0

E.Hohenester, J.W.Keller, J.N.Jansonius. An Alkali Metal Ion Size-Dependent Switch in the Active Site Structure of Dialkylglycine Decarboxylase. Biochemistry V. 33 13561 1994.
ISSN: ISSN 0006-2960
PubMed: 7947767
DOI: 10.1021/BI00250A008