Chlorine in PDB 5okz: Crystal Strucrure of the MPP6 Exosome Complex

The structure of Crystal Strucrure of the MPP6 Exosome Complex, PDB code: 5okz was solved by S.Falk, J.Ebert, E.Conti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	80.76 / 3.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	161.779, 237.430, 201.895, 90.00, 110.37, 90.00
R / Rfree (%)	22.3 / 26.2

The structure of Crystal Strucrure of the MPP6 Exosome Complex also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Chlorine atom in the Crystal Strucrure of the MPP6 Exosome Complex (pdb code 5okz). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the Crystal Strucrure of the MPP6 Exosome Complex, PDB code: 5okz:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ G:Cl301 b:99.3 occ:1.00 O G:HOH401 3.4 54.5 1.0 OH G:TYR59 3.7 72.9 1.0 CD1 G:LEU160 3.7 70.5 1.0 N G:ILE65 4.1 77.0 1.0 O G:ARG63 4.3 80.6 1.0 CB G:ILE65 4.5 60.1 1.0 CZ G:TYR59 4.6 80.3 1.0 CA G:TYR64 4.7 58.4 1.0 CG1 G:ILE65 4.7 59.6 1.0 O G:ILE65 4.8 0.8 1.0 OG G:SER61 4.8 82.2 1.0 C G:TYR64 4.9 70.8 1.0 CA G:ILE65 4.9 74.7 1.0 CD1 G:TYR64 4.9 73.9 1.0

Chlorine binding site 2 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl401 b:80.7 occ:1.00 NH2 H:ARG115 3.0 73.8 1.0 NE H:ARG115 3.4 66.9 1.0 CZ H:ARG115 3.7 71.6 1.0 OD2 H:ASP127 3.9 73.1 1.0 CE2 H:TYR230 4.3 79.9 1.0 CE2 H:PHE199 4.3 69.8 1.0 CZ H:PHE199 4.4 57.9 1.0 OH H:TYR230 4.5 56.8 1.0 CB H:ARG115 4.6 63.6 1.0 CZ H:TYR230 4.7 67.8 1.0 CD H:ARG115 4.7 64.5 1.0 NE2 H:GLN201 4.9 81.9 1.0 CG H:ARG115 5.0 67.1 1.0 NH1 H:ARG115 5.0 73.4 1.0

Chlorine binding site 3 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Cl401 b:95.2 occ:1.00 OE1 R:GLN201 3.3 70.8 1.0 OH R:TYR230 3.6 69.2 1.0 NE2 R:GLN201 3.9 63.6 1.0 CD R:GLN201 4.0 68.9 1.0 CZ R:TYR230 4.4 41.7 1.0 CE1 R:TYR230 4.5 44.6 1.0 CA R:GLY129 5.0 57.6 1.0

Chlorine binding site 4 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Cl402 b:73.1 occ:1.00 NH2 R:ARG115 3.2 59.7 1.0 CE2 R:TYR230 3.8 37.5 1.0 NE R:ARG115 3.9 71.4 1.0 CZ R:ARG115 4.0 64.4 1.0 OD2 R:ASP127 4.0 64.0 1.0 CE2 R:PHE199 4.0 52.7 1.0 CZ R:PHE199 4.1 39.3 1.0 NE2 R:GLN201 4.2 63.6 1.0 OH R:TYR230 4.3 69.2 1.0 CZ R:TYR230 4.4 41.7 1.0 CD2 R:TYR230 4.6 42.7 1.0 CD2 R:PHE199 5.0 46.4 1.0 CB R:ARG115 5.0 45.4 1.0

Chlorine binding site 5 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ b:Cl401 b:86.4 occ:1.00 NH2 b:ARG115 3.1 69.8 1.0 NE b:ARG115 3.7 62.0 1.0 CE2 b:TYR230 3.8 61.2 1.0 OD2 b:ASP127 3.8 55.0 1.0 CZ b:ARG115 3.8 68.0 1.0 CE2 b:PHE199 4.3 67.9 1.0 CZ b:PHE199 4.3 50.3 1.0 OH b:TYR230 4.3 66.6 1.0 CZ b:TYR230 4.4 49.3 1.0 CD2 b:TYR230 4.6 61.2 1.0 CB b:ARG115 4.7 57.4 1.0 NE2 b:GLN201 4.9 81.3 1.0 CD b:ARG115 5.0 58.5 1.0

Chlorine binding site 6 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ f:Cl301 b:79.2 occ:1.00 NE2 f:GLN131 3.3 91.4 1.0 CD1 f:ILE100 4.0 55.8 1.0 CD1 f:ILE78 4.1 52.5 1.0 CD f:GLN131 4.4 83.8 1.0 CG2 f:ILE135 4.4 57.4 1.0 OE1 f:GLN131 4.7 59.8 1.0

Chlorine binding site 7 out of 7 in the Crystal Strucrure of the MPP6 Exosome Complex


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Strucrure of the MPP6 Exosome Complex within 5.0Å range: probe atom residue distance (Å) B Occ l:Cl401 b:75.9 occ:1.00 NH2 l:ARG115 3.2 74.1 1.0 NE l:ARG115 3.6 69.8 1.0 OD2 l:ASP127 3.7 85.7 1.0 CZ l:ARG115 3.9 72.9 1.0 CE2 l:TYR230 4.2 68.6 1.0 CE2 l:PHE199 4.2 59.8 1.0 CZ l:PHE199 4.5 59.5 1.0 OH l:TYR230 4.5 65.6 1.0 OE1 l:GLN201 4.6 77.6 1.0 CZ l:TYR230 4.6 55.6 1.0 CB l:ARG115 4.7 58.8 1.0 CD l:ARG115 4.9 72.1 1.0 CD2 l:TYR230 5.0 81.8 1.0 CG l:ASP127 5.0 78.4 1.0

S.Falk, F.Bonneau, J.Ebert, A.Kogel, E.Conti. MPP6 Incorporation in the Nuclear Exosome Contributes to Rna Channeling Through the MTR4 Helicase. Cell Rep V. 20 2279 2017.
ISSN: ESSN 2211-1247
PubMed: 28877463
DOI: 10.1016/J.CELREP.2017.08.033