Xenon in PDB 1uoc: X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein

The structure of X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein, PDB code: 1uoc was solved by S.Thore, F.Mauxion, B.Seraphin, D.Suck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.97 / 2.3
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	78.582, 79.440, 101.324, 90.00, 90.00, 90.00
R / Rfree (%)	23.9 / 26.5

The structure of X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Xenon atom in the X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein (pdb code 1uoc). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 2 binding sites of Xenon where determined in the X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein, PDB code: 1uoc:
Jump to Xenon binding site number: 1; 2;

Xenon binding site 1 out of 2 in the X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Xe1291 b:61.8 occ:1.00 CG1 A:ILE171 3.5 53.0 1.0 N A:ILE171 3.9 56.5 1.0 CB A:TYR193 3.9 36.7 1.0 CB A:LEU170 4.0 55.5 1.0 O A:LEU167 4.0 59.1 1.0 CE A:MET194 4.1 47.8 1.0 CB A:ILE171 4.1 56.0 1.0 CA A:ILE171 4.1 57.5 1.0 CG A:MET194 4.1 38.6 1.0 SD A:MET194 4.2 46.2 1.0 CD1 A:ILE171 4.3 53.8 1.0 CD1 A:LEU174 4.4 62.8 1.0 C A:LEU170 4.5 57.0 1.0 CA A:VAL190 4.5 31.3 1.0 CD1 A:TYR193 4.5 40.7 1.0 CG A:TYR193 4.6 40.5 1.0 CE A:MET151 4.6 38.8 1.0 CA A:LEU167 4.6 59.8 1.0 CB A:LEU167 4.6 59.3 1.0 CG A:LEU167 4.6 59.7 1.0 CG2 A:VAL190 4.6 31.1 1.0 C A:LEU167 4.7 59.4 1.0 CD1 A:LEU170 4.7 54.0 1.0 O A:VAL190 4.8 30.1 1.0 CG1 A:VAL190 4.8 30.2 1.0 CA A:LEU170 4.9 56.0 1.0 CB A:VAL190 4.9 30.9 1.0

Xenon binding site 2 out of 2 in the X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of X-Ray Structure of the Rnase Domain of the Yeast POP2 Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Xe1291 b:63.0 occ:1.00 CG1 B:ILE171 3.4 55.1 1.0 CE B:MET194 3.6 53.3 1.0 CD1 B:ILE171 3.6 50.2 1.0 CB B:LEU170 3.9 57.5 1.0 CB B:TYR193 4.0 52.4 1.0 N B:ILE171 4.2 59.3 1.0 CD1 B:LEU170 4.4 54.0 1.0 O B:LEU167 4.4 50.6 1.0 CG B:MET194 4.4 50.7 1.0 CE B:MET151 4.5 43.5 1.0 CB B:ILE171 4.5 56.9 1.0 CA B:ILE171 4.5 59.9 1.0 CG1 B:VAL190 4.5 44.8 1.0 SD B:MET194 4.6 50.5 1.0 CG B:LEU167 4.6 55.2 1.0 CA B:VAL190 4.6 45.1 1.0 C B:LEU170 4.6 59.1 1.0 CD2 B:LEU174 4.7 77.7 1.0 CA B:LEU167 4.7 54.9 1.0 CG2 B:VAL190 4.7 43.2 1.0 CB B:LEU167 4.8 55.1 1.0 CD1 B:TYR193 4.8 57.5 1.0 CG B:LEU170 4.9 57.5 1.0 O B:VAL190 4.9 45.6 1.0 CB B:VAL190 4.9 44.1 1.0 CG B:TYR193 4.9 57.3 1.0 CB B:MET194 4.9 48.1 1.0 CA B:LEU170 5.0 58.3 1.0

S.Thore, F.Mauxion, B.Seraphin, D.Suck. X-Ray Structure and Activity of the Yeast POP2 Protein: A Nuclease Subunit of the Mrna Deadenylase Complex Embo Rep. V. 4 1150 2003.
ISSN: ISSN 1469-221X
PubMed: 14618157
DOI: 10.1038/SJ.EMBOR.7400020