Magnesium in PDB 3r9w: Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna

The structure of Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna, PDB code: 3r9w was solved by C.Tu, X.Ji, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.91 / 2.05
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	88.946, 85.604, 67.184, 90.00, 111.20, 90.00
R / Rfree (%)	18.8 / 24.3

The structure of Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna (pdb code 3r9w). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna, PDB code: 3r9w:

Magnesium binding site 1 out of 1 in the Crystal Structure of Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna


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 Era in Complex with Mggdpnp and Nucleotides 1506- 1542 of 16S Ribosomal Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:43.4 occ:1.00 OG1 A:THR38 2.1 34.1 1.0 O1G A:GNP402 2.1 46.9 1.0 O2B A:GNP402 2.2 47.0 1.0 O A:HOH611 2.2 35.1 1.0 O A:HOH632 2.2 38.9 1.0 OG A:SER17 2.2 32.1 1.0 CB A:THR38 3.1 34.4 1.0 CB A:SER17 3.2 36.5 1.0 PG A:GNP402 3.2 43.0 1.0 PB A:GNP402 3.3 40.9 1.0 N3B A:GNP402 3.4 34.8 1.0 O3G A:GNP402 3.8 34.1 1.0 N A:SER17 3.8 34.4 1.0 N A:THR38 3.9 41.8 1.0 OD2 A:ASP58 4.1 38.2 1.0 CA A:THR38 4.1 34.1 1.0 CA A:SER17 4.1 36.9 1.0 O A:HOH637 4.2 40.2 1.0 O2A A:GNP402 4.2 31.4 1.0 CG2 A:THR38 4.2 35.7 1.0 OD1 A:ASP58 4.2 40.9 1.0 O A:ILE30 4.3 40.1 1.0 O3A A:GNP402 4.3 43.1 1.0 O1B A:GNP402 4.3 35.9 1.0 PA A:GNP402 4.5 37.7 1.0 O2G A:GNP402 4.5 41.4 1.0 CG A:ASP58 4.6 47.7 1.0 O A:THR59 4.6 41.6 1.0 O1A A:GNP402 4.6 34.6 1.0 CB A:THR37 4.7 39.4 1.0 CB A:LYS16 4.8 31.5 1.0 OG A:SER29 4.9 49.0 1.0 O A:HOH624 4.9 51.3 1.0 C A:LYS16 4.9 34.2 1.0 C A:THR37 4.9 43.9 1.0

C.Tu, X.Zhou, S.G.Tarasov, J.E.Tropea, B.P.Austin, D.S.Waugh, D.L.Court, X.Ji. The Era Gtpase Recognizes the Gaucaccucc Sequence and Binds Helix 45 Near the 3' End of 16S Rrna. Proc.Natl.Acad.Sci.Usa V. 108 10156 2011.
ISSN: ISSN 0027-8424
PubMed: 21646538
DOI: 10.1073/PNAS.1017679108