Magnesium in PDB 5vo8: X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter

All present enzymatic activity of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter:
2.7.7.6;

The structure of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter, PDB code: 5vo8 was solved by K.S.Murakami, Y.Shin, C.L.Turnbough Jr, V.Molodtsov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.88 / 3.30
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	186.537, 101.984, 296.113, 90.00, 98.56, 90.00
R / Rfree (%)	18.5 / 24.6

The structure of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter (pdb code 5vo8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter, PDB code: 5vo8:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1001 b:80.0 occ:1.00 OE2 B:GLU154 2.3 0.6 1.0 O D:LYS840 2.4 97.5 1.0 OE1 B:GLU154 2.6 0.7 1.0 OD2 B:ASP168 2.7 88.4 1.0 OD1 B:ASP168 2.8 86.9 1.0 CD B:GLU154 2.8 0.6 1.0 CG B:ASP168 3.2 85.0 1.0 C D:LYS840 3.5 99.1 1.0 CA D:TYR841 4.3 86.2 1.0 N D:TYR841 4.3 91.7 1.0 CG B:GLU154 4.4 0.1 1.0 N D:VAL842 4.6 83.3 1.0 CD1 D:TYR841 4.6 95.9 1.0 CA D:LYS840 4.6 97.1 1.0 CB B:ASP168 4.7 82.8 1.0 CB B:ALA153 4.7 0.4 1.0 O D:LEU839 4.9 0.9 1.0 C D:TYR841 5.0 82.0 1.0

Magnesium binding site 2 out of 2 in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg2001 b:46.3 occ:1.00 O3' I:G8 2.1 0.1 1.0 OD1 D:ASP743 2.2 53.4 1.0 OD1 D:ASP741 2.3 68.9 1.0 OD1 D:ASP739 2.4 85.2 1.0 OD2 D:ASP741 2.6 69.2 1.0 OD2 D:ASP743 2.8 45.4 1.0 CG D:ASP741 2.8 64.7 1.0 CB D:ASP739 2.8 65.3 1.0 CG D:ASP743 2.9 48.8 1.0 CG D:ASP739 3.0 78.1 1.0 C3' I:G8 3.5 92.2 1.0 N D:ASP739 3.7 71.5 1.0 CA D:ASP739 3.8 66.0 1.0 O2' I:G8 4.0 96.7 1.0 C4' I:G8 4.2 75.8 1.0 OD2 D:ASP739 4.2 82.9 1.0 CB D:ASP741 4.3 59.5 1.0 C2' I:G8 4.3 99.8 1.0 C D:ASP739 4.4 72.1 1.0 CB D:ASP743 4.5 45.1 1.0 NH2 D:ARG704 4.5 75.7 1.0 N D:ASP741 4.6 61.0 1.0 C5' I:G8 4.6 74.9 1.0 O D:ASP739 4.7 80.2 1.0 C D:ALA738 4.8 68.2 1.0 O D:ASN737 4.9 70.4 1.0 CA D:ASP741 4.9 63.2 1.0 O6 C:POP1201 4.9 0.1 1.0 N D:ASP743 5.0 46.9 1.0

K.S.Murakami, Y.Shin, C.L.Turnbough, V.Molodtsov. X-Ray Crystal Structure of A Reiterative Transcription Complex Reveals An Atypical Rna Extension Pathway. Proc. Natl. Acad. Sci. V. 114 8211 2017U.S.A..
ISSN: ESSN 1091-6490
PubMed: 28652344
DOI: 10.1073/PNAS.1702741114