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Sodium in PDB 6wrq: Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine

Enzymatic activity of Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine

All present enzymatic activity of Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine:
6.1.1.1;

Protein crystallography data

The structure of Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine, PDB code: 6wrq was solved by J.N.Beyer, P.Hosseinzadeh, P.A.Karplus, R.A.Mehl, R.B.Cooley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.62 / 1.85
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 102.000, 102.000, 71.660, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 20.6

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine (pdb code 6wrq). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine, PDB code: 6wrq:

Sodium binding site 1 out of 1 in 6wrq

Go back to Sodium Binding Sites List in 6wrq
Sodium binding site 1 out of 1 in the Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Mj 3-Nitro-Tyrosine Trna Synthetase (5B) S158C Variant Bound to 3-Nitro-Tyrosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na403

b:35.1
occ:1.00
 OD2 A:ASP27 2.5 47.0 1.0
O A:HOH693 2.8 42.9 1.0
CG A:ASP27 3.5 48.3 1.0
OD1 A:ASP27 3.7 43.5 1.0
O A:HOH636 4.3 47.8 1.0
HB3 A:ASP27 4.7 63.6 1.0
CB A:ASP27 4.7 53.0 1.0

Reference:

J.N.Beyer, P.Hosseinzadeh, I.Gottfried-Lee, E.M.Van Fossen, P.Zhu, R.M.Bednar, P.A.Karplus, R.A.Mehl, R.B.Cooley. Overcoming Near-Cognate Suppression in A Release Factor 1-Deficient Host with An Improved Nitro-Tyrosine Trna Synthetase. J.Mol.Biol. V. 432 4690 2020.
ISSN: ESSN 1089-8638
PubMed: 32569745
DOI: 10.1016/J.JMB.2020.06.014
Page generated: Tue Oct 8 14:42:36 2024

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