Magnesium in PDB 1e1t: Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate

All present enzymatic activity of Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate:
6.1.1.6;

The structure of Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate, PDB code: 1e1t was solved by G.Desogus, F.Todone, P.Brick, S.Onesti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 2.40
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	143.100, 143.100, 176.100, 90.00, 90.00, 120.00
R / Rfree (%)	18.6 / 26.7

The binding sites of Magnesium atom in the Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate (pdb code 1e1t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate, PDB code: 1e1t:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg603 b:57.9 occ:1.00 O4 A:POP602 2.4 35.4 0.5 OE2 A:GLU414 2.6 35.4 1.0 OE2 A:GLU421 2.9 27.7 1.0 O1A A:LAD601 2.9 44.4 1.0 OE1 A:GLU421 3.1 30.7 1.0 P2 A:POP602 3.3 33.0 0.5 CD A:GLU421 3.3 25.1 1.0 O6 A:POP602 3.5 25.4 0.5 CD A:GLU414 3.7 28.5 1.0 NH2 A:ARG412 4.0 13.5 1.0 O A:HOH967 4.0 47.7 1.0 O5 A:POP602 4.0 31.4 0.5 OE1 A:GLU414 4.1 36.1 1.0 PA A:LAD601 4.1 45.4 1.0 O3 A:POP602 4.3 34.5 0.5 ND2 A:ASN424 4.4 23.0 1.0 O A:HOH841 4.4 24.6 1.0 O A:HOH761 4.4 45.4 1.0 O2A A:LAD601 4.4 49.3 1.0 O A:POP602 4.7 31.7 0.5 CG A:ASN424 4.8 22.3 1.0 CG A:GLU421 4.8 20.4 1.0 CB A:ASN424 4.9 18.1 1.0 CG A:GLU414 4.9 22.5 1.0 O1 A:GOL608 5.0 62.8 1.0 O3A A:LAD601 5.0 38.8 1.0

Magnesium binding site 2 out of 2 in the Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Lysyl-Trna Synthetase (Lysu) Hexagonal Form Complexed with the LYSYL_ADENYLATE Intermediate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg604 b:59.9 occ:1.00 O1 A:POP602 2.1 33.9 0.5 O A:POP602 2.2 31.7 0.5 O5 A:POP602 2.6 31.4 0.5 P1 A:POP602 2.7 35.1 0.5 P2 A:POP602 2.9 33.0 0.5 O A:HOH732 2.9 41.9 1.0 NE2 A:HIS270 3.5 42.9 1.0 O3 A:POP602 3.5 34.5 0.5 O4 A:POP602 3.6 35.4 0.5 O A:HOH891 3.7 43.9 1.0 O2 A:POP602 3.9 30.8 0.5 O6 A:POP602 4.2 25.4 0.5 CD2 A:HIS270 4.3 37.7 1.0 OE2 A:GLU264 4.3 41.0 1.0 CE1 A:HIS270 4.4 39.1 1.0 N7 A:LAD601 4.6 28.9 1.0 OE1 A:GLU264 4.9 39.0 1.0 CD A:GLU264 5.0 39.1 1.0 C8 A:LAD601 5.0 28.0 1.0

G.Desogus, F.Todone, P.Brick, S.Onesti. Active Site of Lysyl-Trna Synthetase: Structural Studies of the Adenylation Reaction Biochemistry V. 39 8418 2000.
ISSN: ISSN 0006-2960
PubMed: 10913247
DOI: 10.1021/BI0006722