Magnesium in PDB 5o7x: Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution

The structure of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution, PDB code: 5o7x was solved by C.Engel, T.Gubbey, S.Neyer, S.Sainsbury, C.Oberthuer, C.Baejen, C.Bernecky, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	54.57 / 3.20
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	109.070, 109.140, 385.640, 90.02, 90.01, 59.98
R / Rfree (%)	25.4 / 28.3

The binding sites of Magnesium atom in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution (pdb code 5o7x). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution, PDB code: 5o7x:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1006 b:0.3 occ:1.00 CB A:ALA396 2.4 0.3 1.0 OE1 A:GLU392 2.9 0.2 1.0 CA A:ALA396 3.9 1.0 1.0 NH1 C:ARG85 4.1 0.3 1.0 CD A:GLU392 4.2 0.9 1.0 N A:ALA396 4.6 0.1 1.0 N A:LYS397 4.7 0.1 1.0 CG C:ARG85 4.7 0.2 1.0 CB C:SER86 4.8 1.0 1.0 C A:ALA396 4.8 0.2 1.0 O C:SER86 5.0 0.8 1.0

Magnesium binding site 2 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1005 b:0.7 occ:1.00 CB D:ALA396 2.3 0.6 1.0 OE1 D:GLU392 3.0 0.4 1.0 CA D:ALA396 3.8 0.0 1.0 CD D:GLU392 4.3 0.9 1.0 NH1 F:ARG85 4.4 0.5 1.0 N D:ALA396 4.5 0.3 1.0 N D:LYS397 4.6 0.4 1.0 CB F:SER86 4.7 0.4 1.0 C D:ALA396 4.8 0.1 1.0 CG F:ARG85 4.8 0.4 1.0 O F:SER86 4.8 0.6 1.0

Magnesium binding site 3 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg904 b:0.3 occ:1.00 CB G:ALA396 2.3 0.0 1.0 OE1 G:GLU392 3.0 0.8 1.0 CA G:ALA396 3.8 0.4 1.0 NH1 I:ARG85 4.2 0.3 1.0 CD G:GLU392 4.3 0.3 1.0 N G:ALA396 4.5 0.8 1.0 N G:LYS397 4.6 0.1 1.0 CG I:ARG85 4.7 0.2 1.0 C G:ALA396 4.7 0.4 1.0 CB I:SER86 4.8 0.4 1.0 O I:SER86 4.9 0.3 1.0

Magnesium binding site 4 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg1004 b:0.5 occ:1.00 CB J:ALA396 2.3 0.1 1.0 OE1 J:GLU392 2.9 0.8 1.0 CA J:ALA396 3.8 0.5 1.0 CD J:GLU392 4.2 0.8 1.0 NH1 L:ARG85 4.2 0.7 1.0 N J:ALA396 4.5 0.2 1.0 N J:LYS397 4.6 0.6 1.0 CG L:ARG85 4.8 0.7 1.0 CB L:SER86 4.8 0.2 1.0 C J:ALA396 4.8 0.3 1.0 O L:SER86 4.9 0.5 1.0

Magnesium binding site 5 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg1005 b:0.7 occ:1.00 CB M:ALA396 2.3 0.2 1.0 OE1 M:GLU392 3.1 0.9 1.0 CA M:ALA396 3.9 0.9 1.0 NH1 O:ARG85 4.2 0.6 1.0 CD M:GLU392 4.3 0.5 1.0 N M:ALA396 4.5 0.1 1.0 N M:LYS397 4.6 0.1 1.0 CG O:ARG85 4.6 0.5 1.0 CB O:SER86 4.7 0.8 1.0 C M:ALA396 4.8 0.6 1.0 O O:SER86 4.8 0.9 1.0

Magnesium binding site 6 out of 6 in the Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of S. Cerevisiae Core Factor at 3.2A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ P:Mg1006 b:0.0 occ:1.00 CB P:ALA396 2.3 0.7 1.0 OE1 P:GLU392 2.9 0.8 1.0 CA P:ALA396 3.8 0.4 1.0 NH1 R:ARG85 4.2 1.0 1.0 CD P:GLU392 4.2 0.1 1.0 N P:ALA396 4.5 0.1 1.0 N P:LYS397 4.6 0.7 1.0 CG R:ARG85 4.7 1.0 1.0 C P:ALA396 4.8 0.4 1.0 CB R:SER86 4.9 0.9 1.0 OE2 P:GLU392 5.0 0.5 1.0 O R:SER86 5.0 0.9 1.0

C.Engel, T.Gubbey, S.Neyer, S.Sainsbury, C.Oberthuer, C.Baejen, C.Bernecky, P.Cramer. Structural Basis of Rna Polymerase I Transcription Initiation. Cell V. 169 120 2017.
ISSN: ISSN 1097-4172
PubMed: 28340337
DOI: 10.1016/J.CELL.2017.03.003