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Sodium in PDB 3lss: Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp

Enzymatic activity of Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp

All present enzymatic activity of Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp:
6.1.1.11;

Protein crystallography data

The structure of Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp, PDB code: 3lss was solved by E.T.Larson, E.A.Merritt, Medical Structural Genomics Of Pathogenicprotozoa (Msgpp), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.57 / 1.95
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 175.652, 175.652, 248.518, 90.00, 90.00, 120.00
R / Rfree (%) 16.8 / 19.5

Sodium Binding Sites:

The binding sites of Sodium atom in the Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp (pdb code 3lss). 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 Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp, PDB code: 3lss:

Sodium binding site 1 out of 1 in 3lss

Go back to Sodium Binding Sites List in 3lss
Sodium binding site 1 out of 1 in the Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Trypanosoma Brucei Seryl-Trna Synthetase in Complex with Atp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na600

b:37.2
occ:0.70
OG1 A:THR164 2.3 39.7 1.0
O A:HOH963 2.3 56.8 1.0
O A:HOH917 2.3 52.9 1.0
O A:HOH895 2.4 50.0 1.0
OD1 A:ASN162 2.4 43.5 1.0
O A:HOH964 2.6 55.0 1.0
CB A:THR164 3.4 42.1 1.0
CG A:ASN162 3.6 42.1 1.0
CG2 A:THR164 3.6 43.4 1.0
N A:THR164 3.8 36.5 1.0
CA A:THR164 4.1 38.1 1.0
ND2 A:ASN162 4.3 39.2 1.0
N A:THR163 4.4 36.9 1.0
CA A:ASN162 4.5 38.8 1.0
CB A:ASN162 4.6 38.5 1.0
C A:ASN162 4.7 35.9 1.0
C A:THR164 4.8 33.8 1.0
C A:THR163 4.8 37.1 1.0
N A:LYS165 5.0 33.1 1.0

Reference:

E.T.Larson, L.Zhang, A.Napuli, N.Mueller, C.L.M.J.Verlinde, W.C.Van Voorhis, F.S.Buckner, E.Fan, W.G.J.Hol, E.A.Merritt. X-Ray Crystal Structure of Seryl-Trna Synthetase From the Eukaryotic Parasite Trypanosoma Brucei. To Be Published.
Page generated: Tue Dec 15 06:17:02 2020

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