Magnesium in PDB 9esh: Structure of A B-State Intermediate Committed to Discard (Bd-I State)

All present enzymatic activity of Structure of A B-State Intermediate Committed to Discard (Bd-I State):
2.3.2.27; 3.6.4.13; 5.2.1.8;

The structure of Structure of A B-State Intermediate Committed to Discard (Bd-I State) also contains other interesting chemical elements:

Zinc	(Zn)	6 atoms
Potassium	(K)	1 atom

The binding sites of Magnesium atom in the Structure of A B-State Intermediate Committed to Discard (Bd-I State) (pdb code 9esh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of A B-State Intermediate Committed to Discard (Bd-I State), PDB code: 9esh:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of A B-State Intermediate Committed to Discard (Bd-I State)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A B-State Intermediate Committed to Discard (Bd-I State) within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg101 b:64.6 occ:1.00 OP1 6:G65 2.0 84.9 1.0 OP1 6:C49 2.8 81.3 1.0 P 6:G65 3.4 84.9 1.0 O5' 6:G65 3.9 84.9 1.0 P 6:C49 4.0 81.3 1.0 O3' 6:G48 4.0 86.8 1.0 O3' 6:A64 4.1 76.3 1.0 C5' 6:G65 4.4 84.9 1.0 OP2 6:G65 4.5 84.9 1.0 OE1 A:GLN698 4.6 62.9 1.0 OP2 6:C49 5.0 81.3 1.0 O5' 6:C49 5.0 81.3 1.0

Magnesium binding site 2 out of 4 in the Structure of A B-State Intermediate Committed to Discard (Bd-I State)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A B-State Intermediate Committed to Discard (Bd-I State) within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg102 b:75.0 occ:1.00 OP2 6:G69 2.0 108.6 1.0 P 6:G69 3.4 108.6 1.0 OP2 6:G65 3.8 84.9 1.0 O3' 6:U68 3.9 109.2 1.0 OP1 6:G69 4.1 108.6 1.0 OP2 6:G66 4.3 97.7 1.0 N7 6:G65 4.5 84.9 1.0 O5' 6:G69 4.5 108.6 1.0 N7 6:G66 4.5 97.7 1.0 C8 6:G65 4.6 84.9 1.0 OP2 6:A50 4.8 81.0 1.0 C5' 6:G65 4.9 84.9 1.0 C5' 6:G69 4.9 108.6 1.0 OP2 6:C49 4.9 81.3 1.0

Magnesium binding site 3 out of 4 in the Structure of A B-State Intermediate Committed to Discard (Bd-I State)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of A B-State Intermediate Committed to Discard (Bd-I State) within 5.0Å range: probe atom residue distance (Å) B Occ 6:Mg104 b:77.4 occ:1.00 OP1 6:G69 2.2 108.6 1.0 P 6:G69 3.4 108.6 1.0 O5' 6:G69 3.7 108.6 1.0 N7 6:G69 3.9 108.6 1.0 C8 6:G69 4.0 108.6 1.0 OP2 6:G69 4.2 108.6 1.0 OP2 6:A70 4.3 118.5 1.0 N7 6:A70 4.4 118.5 1.0 O3' 6:U68 4.6 109.2 1.0 C5 6:G69 4.8 108.6 1.0 C2' 6:U68 4.9 109.2 1.0 C3' 6:U68 4.9 109.2 1.0

Magnesium binding site 4 out of 4 in the Structure of A B-State Intermediate Committed to Discard (Bd-I State)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of A B-State Intermediate Committed to Discard (Bd-I State) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1002 b:28.0 occ:1.00 OG B:SER155 1.9 25.7 1.0 OG B:SER192 2.0 31.7 1.0 O1G B:GTP1001 2.0 37.0 1.0 O2B B:GTP1001 2.4 37.0 1.0 CB B:SER192 3.0 31.7 1.0 CB B:SER155 3.3 25.7 1.0 PG B:GTP1001 3.4 37.0 1.0 OD2 B:ASP216 3.5 30.9 1.0 PB B:GTP1001 3.6 37.0 1.0 OD1 B:ASP216 3.8 30.9 1.0 O3B B:GTP1001 3.9 37.0 1.0 CG B:LYS154 4.0 32.0 1.0 N B:SER155 4.0 25.7 1.0 O B:THR217 4.0 27.0 1.0 CG B:ASP216 4.1 30.9 1.0 CA B:SER155 4.1 25.7 1.0 O2G B:GTP1001 4.2 37.0 1.0 CA B:SER192 4.2 31.7 1.0 O1B B:GTP1001 4.2 37.0 1.0 N B:SER192 4.3 31.7 1.0 OD1 B:ASP181 4.4 37.9 1.0 O3G B:GTP1001 4.5 37.0 1.0 CD B:LYS154 4.7 32.0 1.0 O2A B:GTP1001 4.8 37.0 1.0 O3A B:GTP1001 4.9 37.0 1.0 C B:THR217 4.9 27.0 1.0 C B:LYS154 4.9 32.0 1.0 NZ B:LYS154 4.9 32.0 1.0

K.Soni, K.Wild, I.M.Sinning. Structures of Aberrant Spliceosome Intermediates on Their Way to Disassembly To Be Published.