Rubidium in PDB 7ldt: Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak

All present enzymatic activity of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak:
2.3.1.9;

The structure of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak, PDB code: 7ldt was solved by A.C.Marshall, J.B.Bruning, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.82 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	84.244, 79.758, 150.583, 90, 93.71, 90
R / Rfree (%)	19.5 / 23.9

The binding sites of Rubidium atom in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak (pdb code 7ldt). This binding sites where shown within 5.0 Angstroms radius around Rubidium atom.
In total 4 binding sites of Rubidium where determined in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak, PDB code: 7ldt:
Jump to Rubidium binding site number: 1; 2; 3; 4;

Rubidium binding site 1 out of 4 in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 1 of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak within 5.0Å range: probe atom residue distance (Å) B Occ A:Rb404 b:43.1 occ:0.68 O A:ALA246 2.8 35.4 1.0 OH A:TYR183 2.8 42.8 1.0 O A:ALA243 3.0 36.1 1.0 O A:ILE344 3.3 25.1 1.0 O A:GLY244 3.3 31.1 1.0 O A:HOH537 3.7 27.4 1.0 C A:GLY244 3.9 32.1 1.0 C A:ALA246 4.0 31.1 1.0 CZ A:TYR183 4.0 40.1 1.0 O A:HOH597 4.0 34.8 1.0 CA A:GLY244 4.1 33.9 1.0 C A:ALA243 4.2 34.8 1.0 CG2 A:ILE344 4.3 25.5 1.0 N6A A:COA403 4.3 35.6 0.8 O A:HOH577 4.3 46.9 1.0 CE2 A:TYR183 4.4 24.4 1.0 C A:ILE344 4.4 24.1 1.0 N7A A:COA403 4.4 34.8 0.8 N A:ALA246 4.5 33.6 1.0 N A:GLY244 4.6 36.5 1.0 CA A:SER247 4.7 37.5 1.0 N A:GLY248 4.8 36.3 1.0 N A:SER247 4.8 34.3 1.0 CA A:ILE344 4.8 23.2 1.0 C A:SER247 4.9 35.8 1.0 CA A:ALA246 4.9 34.0 1.0 N A:ASN245 5.0 32.1 1.0

Rubidium binding site 2 out of 4 in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 2 of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak within 5.0Å range: probe atom residue distance (Å) B Occ B:Rb403 b:36.7 occ:0.60 OH B:TYR183 2.7 41.6 1.0 O B:ALA246 2.8 25.5 1.0 O B:ALA243 3.0 36.8 1.0 O B:ILE344 3.2 27.7 1.0 O B:GLY244 3.3 28.2 1.0 O B:HOH611 3.4 32.3 1.0 O B:HOH628 3.4 25.5 1.0 O B:HOH617 3.7 22.1 1.0 CZ B:TYR183 3.9 39.2 1.0 C B:GLY244 3.9 29.9 1.0 C B:ALA246 4.0 26.5 1.0 O B:HOH568 4.1 52.1 1.0 CA B:GLY244 4.1 30.7 1.0 C B:ALA243 4.2 36.6 1.0 CG2 B:ILE344 4.2 24.7 1.0 C B:ILE344 4.3 25.5 1.0 N6A B:COA402 4.3 48.8 0.8 CE2 B:TYR183 4.4 37.3 1.0 N B:ALA246 4.5 27.1 1.0 N B:GLY244 4.6 33.5 1.0 N7A B:COA402 4.7 51.8 0.8 CA B:ILE344 4.7 22.6 1.0 CA B:SER247 4.8 40.5 1.0 N B:GLY248 4.8 41.1 1.0 N B:SER247 4.8 33.2 1.0 C B:SER247 4.9 44.1 1.0 CA B:ALA246 4.9 32.0 1.0 CE1 B:TYR183 5.0 38.9 1.0 N B:ASN245 5.0 31.7 1.0

Rubidium binding site 3 out of 4 in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 3 of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak within 5.0Å range: probe atom residue distance (Å) B Occ C:Rb403 b:52.7 occ:0.59 OH C:TYR183 2.8 74.8 1.0 O C:ALA246 2.8 59.6 1.0 O C:ILE344 3.0 44.2 1.0 O C:ALA243 3.5 49.9 1.0 O C:GLY244 3.6 56.0 1.0 CZ C:TYR183 4.0 71.5 1.0 C C:ALA246 4.0 57.2 1.0 C C:ILE344 4.1 41.9 1.0 C C:GLY244 4.3 56.4 1.0 CG2 C:ILE344 4.4 38.7 1.0 OE2 C:GLU218 4.5 63.9 1.0 CA C:SER247 4.5 58.0 1.0 N C:GLY248 4.5 54.3 1.0 CA C:GLY244 4.5 54.8 1.0 C C:ALA243 4.6 52.9 1.0 CA C:ILE344 4.7 39.7 1.0 C C:SER247 4.7 58.4 1.0 N C:SER247 4.7 58.5 1.0 CE2 C:TYR183 4.7 68.0 1.0 N C:ALA246 4.7 52.2 1.0 CE1 C:TYR183 4.8 69.0 1.0 N7A C:COA401 4.8 69.8 0.8 N6A C:COA401 4.8 70.5 0.8

Rubidium binding site 4 out of 4 in the Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak


Mono view


Stereo pair view

A full contact list of Rubidium with other atoms in the Rb binding site number 4 of Zoogloea Ramigera Biosynthetic Thiolase Q183Y/Y218E Mutant, Rbcl Soak within 5.0Å range: probe atom residue distance (Å) B Occ D:Rb402 b:122.3 occ:0.94 OH D:TYR183 2.9 73.6 1.0 O D:ALA246 3.1 89.0 1.0 O D:ILE344 3.2 53.6 1.0 O D:ALA243 3.4 91.0 1.0 O D:GLY244 4.2 85.3 1.0 CZ D:TYR183 4.2 74.2 1.0 C D:ALA246 4.3 86.1 1.0 N D:GLY248 4.4 80.6 1.0 C D:ILE344 4.4 51.3 1.0 C D:ALA243 4.6 94.0 1.0 C D:SER247 4.6 84.2 1.0 CA D:SER247 4.6 81.2 1.0 OE2 D:GLU218 4.7 70.9 1.0 C D:GLY244 4.8 89.7 1.0 CA D:GLY244 4.8 95.0 1.0 CG2 D:ILE344 4.8 59.5 1.0 CA D:GLY248 4.9 77.2 1.0 N D:SER247 4.9 81.5 1.0 CE2 D:TYR183 4.9 74.9 1.0

A.C.Marshall, J.B.Bruning. Engineering Potassium Activation Into Biosynthetic Thiolase. Biochem.J. V. 478 3047 2021.
ISSN: ESSN 1470-8728
PubMed: 34338286
DOI: 10.1042/BCJ20210455