Magnesium in PDB 2q7e: The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue

The structure of The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue, PDB code: 2q7e was solved by J.M.Kavran, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.40 / 1.80
Space group	P 64
Cell size a, b, c (Å), α, β, γ (°)	105.124, 105.124, 70.314, 90.00, 90.00, 120.00
R / Rfree (%)	16.6 / 19.1

The binding sites of Magnesium atom in the The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue (pdb code 2q7e). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue, PDB code: 2q7e:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:37.1 occ:1.00 O A:HOH1014 2.1 38.1 1.0 O2G A:ANP900 2.1 35.9 1.0 O2B A:ANP900 2.1 34.3 1.0 O A:HOH1006 2.1 40.8 1.0 O A:HOH1004 2.2 39.8 1.0 O A:HOH1002 2.2 32.2 1.0 PB A:ANP900 3.4 37.4 1.0 PG A:ANP900 3.4 36.0 1.0 N3B A:ANP900 3.7 38.4 1.0 NH1 A:ARG330 3.8 42.1 1.0 O1G A:ANP900 4.0 37.3 1.0 O A:HOH1016 4.1 46.9 1.0 NE2 A:HIS338 4.1 40.4 1.0 OE2 A:GLU332 4.2 40.3 1.0 O A:HOH1106 4.4 60.3 1.0 O1B A:ANP900 4.4 41.7 1.0 O3A A:ANP900 4.4 38.6 1.0 OE1 A:GLN287 4.4 47.0 1.0 OE1 A:GLU332 4.5 39.1 1.0 CD2 A:HIS338 4.5 38.5 1.0 NE2 A:GLN287 4.6 41.1 1.0 O3G A:ANP900 4.6 34.8 1.0 N7 A:ANP900 4.7 32.0 1.0 CD A:GLU332 4.8 39.1 1.0 CD A:GLN287 5.0 42.5 1.0

Magnesium binding site 2 out of 2 in the The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Structure of Pyrrolysyl-Trna Synthetase Bound to An Atp Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:40.1 occ:1.00 O1B A:ANP900 2.2 41.7 1.0 O A:HOH1117 2.3 68.8 1.0 OG A:SER399 2.3 50.3 1.0 OE2 A:GLU396 2.5 42.9 1.0 O2A A:ANP900 2.5 41.6 1.0 OE1 A:GLU396 2.7 51.3 1.0 CD A:GLU396 2.9 47.3 1.0 O A:HOH1118 3.2 55.6 1.0 CB A:SER399 3.4 48.8 1.0 PB A:ANP900 3.5 37.4 1.0 PA A:ANP900 3.6 37.2 1.0 O3A A:ANP900 3.7 38.6 1.0 O A:HOH1022 3.9 83.1 1.0 N3B A:ANP900 4.2 38.4 1.0 OD1 A:ASP389 4.2 48.7 1.0 CG A:GLU396 4.4 40.8 1.0 O1A A:ANP900 4.6 33.4 1.0 CA A:SER399 4.6 38.3 1.0 O2B A:ANP900 4.7 34.3 1.0 OD2 A:ASP389 4.7 64.7 1.0 CG A:ASP389 4.8 53.4 1.0 O3' A:ANP900 4.8 35.8 1.0 N A:SER399 4.8 40.0 1.0 O1G A:ANP900 4.8 37.3 1.0 O5' A:ANP900 4.9 35.6 1.0 O A:HOH1087 4.9 52.1 1.0

J.M.Kavran, S.Gundllapalli, P.O'donoghue, M.Englert, D.Soll, T.A.Steitz. Structure of Pyrrolysyl-Trna Synthetase, An Archaeal Enzyme For Genetic Code Innovation. Proc.Natl.Acad.Sci.Usa V. 104 11268 2007.
ISSN: ISSN 0027-8424
PubMed: 17592110
DOI: 10.1073/PNAS.0704769104