Potassium in PDB 6ufg: Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh

The structure of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh, PDB code: 6ufg was solved by R.A.Battaglia, J.C.Grigg, A.Ke, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	77.21 / 2.93
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	77.209, 77.209, 172.754, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 23.5

The structure of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh also contains other interesting chemical elements:

Magnesium

(Mg)

11 atoms

The binding sites of Potassium atom in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh (pdb code 6ufg). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh, PDB code: 6ufg:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh within 5.0Å range: probe atom residue distance (Å) B Occ B:K103 b:0.8 occ:1.00 OP2 B:C57 2.7 88.2 1.0 OP1 B:C57 3.5 79.2 1.0 P B:C57 3.5 61.3 1.0 OP1 B:U56 3.9 79.2 1.0 O3' B:U56 4.6 65.6 1.0 O5' B:U56 4.6 69.2 1.0 P B:U56 4.7 69.8 1.0 O5' B:C57 4.7 53.1 1.0 C5' B:C57 4.8 66.6 1.0

Potassium binding site 2 out of 4 in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh within 5.0Å range: probe atom residue distance (Å) B Occ B:K104 b:0.6 occ:1.00 O4 B:U56 3.6 90.7 1.0 C5 B:U56 3.8 88.8 1.0 C4 B:U56 4.1 76.0 1.0 OP2 B:U55 4.3 69.0 1.0 C6 B:U56 4.9 81.5 1.0

Potassium binding site 3 out of 4 in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh within 5.0Å range: probe atom residue distance (Å) B Occ A:K210 b:0.5 occ:1.00 OP2 A:A35 2.7 0.7 1.0 N7 A:A36 3.8 0.3 1.0 P A:A35 4.0 0.4 1.0 N6 A:A36 4.1 92.9 1.0 O5' A:A35 4.3 0.8 1.0 O6 A:G37 4.6 0.8 1.0 C5 A:A36 4.7 0.8 1.0 N7 A:A35 4.7 0.8 1.0 O2' A:G56 4.8 0.0 1.0 OP1 A:A35 4.8 0.9 1.0 OP2 A:A36 4.8 0.0 1.0 C8 A:A36 4.8 0.8 1.0 C8 A:A35 4.8 0.4 1.0 C6 A:A36 4.9 95.4 1.0

Potassium binding site 4 out of 4 in the Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Co-Crystal Structure of M. Tuberculosis Iles T-Box in Complex with Trna-3'-Oh within 5.0Å range: probe atom residue distance (Å) B Occ A:K211 b:0.5 occ:1.00 OP2 A:A58 2.8 0.8 1.0 P A:A58 4.2 0.4 1.0 N2 A:G37 4.2 0.8 1.0 N1 A:A36 4.3 1.0 1.0 N7 A:G59 4.3 0.2 1.0 O6 A:G59 4.4 0.0 1.0 N6 A:A36 4.6 92.9 1.0 O5' A:A58 4.8 0.5 1.0 OP2 A:U57 4.8 0.4 1.0 OP1 A:A58 4.9 0.0 1.0 C2 A:G37 4.9 0.9 1.0 C6 A:A36 5.0 95.4 1.0 N1 A:G37 5.0 0.5 1.0 OP2 A:G59 5.0 94.6 1.0

R.A.Battaglia, J.C.Grigg, A.Ke. Structural Basis For Trna Decoding and Aminoacylation Sensing By T-Box Riboregulators. Nat.Struct.Mol.Biol. 2019.
ISSN: ESSN 1545-9985
PubMed: 31740853
DOI: 10.1038/S41594-019-0327-6