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Magnesium in PDB 4rrk: Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA

Enzymatic activity of Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA

All present enzymatic activity of Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA:
6.1.1.3;

Protein crystallography data

The structure of Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA, PDB code: 4rrk was solved by S.Ahmad, S.Muthukumar, R.Sankaranarayanan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.86
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 47.921, 47.921, 114.481, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 21.6

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA (pdb code 4rrk). 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 Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA, PDB code: 4rrk:

Magnesium binding site 1 out of 1 in 4rrk

Go back to Magnesium Binding Sites List in 4rrk
Magnesium binding site 1 out of 1 in the Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Y115A Mutant of N-Terminal Editing Domain of Threonyl-Trna Synthetase From Aeropyrum Pernix with L-THR3AA within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:26.0
occ:1.00
 O A:SER133 2.6 15.8 1.0
CE1 A:PHE134 3.5 14.5 1.0
C A:SER133 3.8 16.5 1.0
CD1 A:PHE134 3.8 14.2 1.0
CZ A:PHE134 4.0 14.4 1.0
N A:SER133 4.0 15.9 1.0
CD A:ARG132 4.3 18.9 1.0
CG A:PHE134 4.5 15.0 1.0
CA A:SER133 4.5 16.1 1.0
CE2 A:PHE134 4.6 14.9 1.0
CB A:ARG132 4.7 17.1 1.0
N A:PHE134 4.8 15.2 1.0
CD2 A:PHE134 4.8 14.5 1.0
CA A:ARG132 4.9 15.9 1.0
C A:ARG132 4.9 15.7 1.0
CA A:PHE134 5.0 16.3 1.0

Reference:

S.Ahmad, S.Muthukumar, S.K.Kuncha, S.B.Routh, A.S.Yerabham, T.Hussain, V.Kamarthapu, S.P.Kruparani, R.Sankaranarayanan. Specificity and Catalysis Hardwired at the Rna-Protein Interface in A Translational Proofreading Enzyme. Nat Commun V. 6 7552 2015.
ISSN: ESSN 2041-1723
PubMed: 26113036
DOI: 10.1038/NCOMMS8552
Page generated: Mon Aug 11 23:36:12 2025

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