Magnesium in PDB 6bk8: S. Cerevisiae Spliceosomal Post-Catalytic P Complex

All present enzymatic activity of S. Cerevisiae Spliceosomal Post-Catalytic P Complex:
2.3.2.27; 3.6.4.13;

The structure of S. Cerevisiae Spliceosomal Post-Catalytic P Complex also contains other interesting chemical elements:

Zinc

(Zn)

7 atoms

The binding sites of Magnesium atom in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex (pdb code 6bk8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex, PDB code: 6bk8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of S. Cerevisiae Spliceosomal Post-Catalytic P Complex within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg501 b:39.3 occ:1.00 OP1 6:G78 2.3 35.4 1.0 O3' e:A-1 2.3 36.6 1.0 OP2 6:U80 2.5 35.4 1.0 OP1 e:G1 2.6 47.3 1.0 P e:G1 2.9 47.3 1.0 OP1 6:U80 3.3 35.4 1.0 P 6:U80 3.4 35.4 1.0 OP2 e:G1 3.5 47.3 1.0 C3' e:A-1 3.6 36.6 1.0 P 6:G78 3.7 35.4 1.0 C4' e:A-1 3.9 36.6 1.0 OP2 6:G60 4.1 35.4 1.0 C5' e:A-1 4.2 36.6 1.0 OP2 6:G78 4.3 35.4 1.0 O5' e:G1 4.3 47.3 1.0 O5' 6:U80 4.4 35.4 1.0 OP1 6:G60 4.4 35.4 1.0 O2' e:A-1 4.4 36.6 1.0 O3' 6:G77 4.5 35.4 1.0 O3' 6:A79 4.6 35.4 1.0 C2' e:A-1 4.6 36.6 1.0 O5' 6:G78 4.7 35.4 1.0 P 6:G60 4.7 35.4 1.0 C3' 6:A79 4.9 35.4 1.0 O3' i:G1118 4.9 35.4 1.0

Magnesium binding site 2 out of 5 in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of S. Cerevisiae Spliceosomal Post-Catalytic P Complex within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg502 b:35.4 occ:1.00 OP2 6:G81 2.0 6.7 1.0 P 6:G81 3.4 6.7 1.0 O5' 6:G81 3.9 6.7 1.0 O3' 6:U80 4.2 35.4 1.0 OP2 6:A62 4.3 35.4 1.0 OP2 6:G77 4.4 35.4 1.0 OP1 6:G81 4.4 6.7 1.0 N7 6:G78 4.6 35.4 1.0 OP2 6:G78 4.9 35.4 1.0 N7 6:G77 4.9 35.4 1.0 OP2 6:C61 5.0 20.3 1.0

Magnesium binding site 3 out of 5 in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of S. Cerevisiae Spliceosomal Post-Catalytic P Complex within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg503 b:9.3 occ:1.00 OP1 6:G81 2.4 6.7 1.0 P 6:G81 3.7 6.7 1.0 OP2 6:G81 4.1 6.7 1.0 N7 6:A82 4.2 35.4 1.0 OP2 6:A82 4.2 35.4 1.0 O6 6:G63 4.3 35.4 1.0 O5' 6:G81 4.5 6.7 1.0 N7 6:G81 4.6 6.7 1.0 C2' 6:U80 4.7 35.4 1.0 C8 6:G81 4.7 6.7 1.0 O3' 6:U80 4.8 35.4 1.0 N7 6:A62 4.8 35.4 1.0 N6 6:A82 4.9 35.4 1.0 C3' 6:U80 4.9 35.4 1.0

Magnesium binding site 4 out of 5 in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of S. Cerevisiae Spliceosomal Post-Catalytic P Complex within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg504 b:35.4 occ:1.00 OP1 6:G77 1.8 35.4 1.0 OP1 6:C61 2.0 20.3 1.0 P 6:G77 3.2 35.4 1.0 P 6:C61 3.5 20.3 1.0 O5' 6:G77 3.5 35.4 1.0 O3' 6:A76 3.9 35.4 1.0 C5' 6:G77 4.2 35.4 1.0 O3' 6:G60 4.2 35.4 1.0 O2' e:A-1 4.2 36.6 1.0 OP2 6:C61 4.3 20.3 1.0 OP2 6:G77 4.3 35.4 1.0 O5' 6:C61 4.4 20.3 1.0 NE2 A:GLN748 4.8 35.4 1.0

Magnesium binding site 5 out of 5 in the S. Cerevisiae Spliceosomal Post-Catalytic P Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of S. Cerevisiae Spliceosomal Post-Catalytic P Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2002 b:12.4 occ:1.00 O2G B:GTP2001 2.1 15.6 1.0 O1B B:GTP2001 2.1 15.6 1.0 OG1 B:THR147 2.1 14.8 1.0 OG B:SER190 2.1 11.7 1.0 CB B:SER190 2.9 11.7 1.0 PG B:GTP2001 3.2 15.6 1.0 O3G B:GTP2001 3.4 15.6 1.0 PB B:GTP2001 3.5 15.6 1.0 CB B:THR147 3.5 14.8 1.0 O3B B:GTP2001 3.8 15.6 1.0 OD2 B:ASP214 4.0 10.8 1.0 O B:ALA215 4.1 10.1 1.0 OD1 B:ASP214 4.1 10.8 1.0 CG B:LYS146 4.1 11.4 1.0 OD1 B:ASP179 4.2 14.1 1.0 CA B:SER190 4.2 11.7 1.0 CG2 B:THR147 4.3 14.8 1.0 N B:THR147 4.3 14.8 1.0 N B:SER190 4.3 11.7 1.0 CA B:THR147 4.4 14.8 1.0 O3A B:GTP2001 4.4 15.6 1.0 O2B B:GTP2001 4.4 15.6 1.0 CG B:ASP214 4.4 10.8 1.0 O1G B:GTP2001 4.5 15.6 1.0 CD B:LYS146 4.5 11.4 1.0 CA B:PRO216 4.9 12.9 1.0 O1A B:GTP2001 5.0 15.6 1.0 C B:ALA215 5.0 10.1 1.0

S.Liu, X.Li, L.Zhang, J.Jiang, R.C.Hill, Y.Cui, K.C.Hansen, Z.H.Zhou, R.Zhao. Structure of the Yeast Spliceosomal Postcatalytic P Complex. Science V. 358 1278 2017.
ISSN: ESSN 1095-9203
PubMed: 29146870
DOI: 10.1126/SCIENCE.AAR3462