Magnesium in PDB 2a6r: Crystal Structure of Yoeb Under Peg Condition

The structure of Crystal Structure of Yoeb Under Peg Condition, PDB code: 2a6r was solved by K.Kamada, F.Hanaoka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.98 / 2.05
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	163.898, 43.138, 89.367, 90.00, 118.49, 90.00
R / Rfree (%)	19.6 / 22.9

The binding sites of Magnesium atom in the Crystal Structure of Yoeb Under Peg Condition (pdb code 2a6r). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Yoeb Under Peg Condition, PDB code: 2a6r:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Yoeb Under Peg Condition


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 Yoeb Under Peg Condition within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:28.4 occ:1.00 O A:HOH497 2.0 28.4 1.0 O A:HOH499 2.1 28.7 1.0 O A:HOH496 2.1 26.9 1.0 O A:HOH498 2.1 29.0 1.0 O A:HOH501 2.1 27.9 1.0 O A:HOH500 2.1 30.1 1.0 O A:TYR84 4.0 25.9 1.0 OXT A:TYR84 4.1 25.2 1.0 O A:HOH451 4.1 28.5 1.0 OE1 A:GLU8 4.2 44.5 1.0 O A:HOH472 4.2 33.7 1.0 OD1 A:ASP12 4.2 17.9 1.0 O A:HOH432 4.3 27.3 1.0 OD2 A:ASP12 4.3 17.4 1.0 C A:TYR84 4.4 26.0 1.0 O A:HOH485 4.4 47.4 1.0 O A:ARG81 4.5 16.4 1.0 CD1 A:TYR82 4.7 19.9 1.0 CG A:ASP12 4.7 17.5 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Yoeb Under Peg Condition


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 Yoeb Under Peg Condition within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg402 b:40.0 occ:1.00 O D:HOH479 2.0 39.1 1.0 O D:HOH481 2.1 40.9 1.0 O D:HOH478 2.1 41.0 1.0 O D:HOH480 2.1 40.3 1.0 O D:HOH483 2.1 40.4 1.0 O D:HOH482 2.1 37.6 1.0 OD2 D:ASP12 4.1 19.5 1.0 O D:HOH453 4.1 40.5 1.0 OD1 D:ASP12 4.3 15.6 1.0 O D:TYR84 4.3 44.4 1.0 OXT D:TYR84 4.3 46.1 1.0 O D:HOH474 4.3 43.6 1.0 O D:HOH454 4.5 33.2 1.0 C D:TYR84 4.5 43.9 1.0 CG D:ASP12 4.6 21.0 1.0 O D:ARG81 4.6 20.2 1.0 CD1 D:TYR82 4.6 25.1 1.0 CB D:ALA79 4.9 13.6 1.0

K.Kamada, F.Hanaoka. Conformational Change in the Catalytic Site of the Ribonuclease Yoeb Toxin By Yefm Antitoxin Mol.Cell V. 19 497 2005.
ISSN: ISSN 1097-2765
PubMed: 16109374
DOI: 10.1016/J.MOLCEL.2005.07.004