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Sodium in PDB 7jhk: Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form

Enzymatic activity of Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form

All present enzymatic activity of Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form:
2.4.1.149;

Protein crystallography data

The structure of Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form, PDB code: 7jhk was solved by Y.Hao, X.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.18 / 2.34
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 67.416, 80.070, 157.614, 90.00, 98.82, 90.00
R / Rfree (%) 17.9 / 21.7

Other elements in 7jhk:

The structure of Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form (pdb code 7jhk). 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 Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form, PDB code: 7jhk:

Sodium binding site 1 out of 1 in 7jhk

Go back to Sodium Binding Sites List in 7jhk
Sodium binding site 1 out of 1 in the Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Human Beta 1,3-N-Acetylglucosaminyltransferase 2 in Unliganded Form within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na403

b:52.6
occ:1.00
 O C:HOH556 2.7 53.3 1.0
OH C:TYR303 3.4 38.8 1.0
CE1 C:TYR289 3.7 51.5 1.0
CD1 C:TYR289 3.9 50.6 1.0
CZ C:TYR289 4.1 53.7 1.0
CE2 C:TYR303 4.2 37.0 1.0
CZ C:TYR303 4.2 40.5 1.0
CG C:TYR289 4.4 50.8 1.0
CG2 C:ILE331 4.4 28.6 1.0
CE2 C:TYR289 4.6 43.4 1.0
OH C:TYR289 4.6 48.7 1.0
CD2 C:TYR289 4.7 44.5 1.0

Reference:

Y.Hao, A.Crequer-Grandhomme, N.Javier, A.Singh, H.Chen, P.Manzanillo, M.C.Lo, X.Huang. Structures and Mechanism of Human Glycosyltransferase Beta 1,3-N-Acetylglucosaminyltransferase 2 (B3GNT2), An Important Player in Immune Homeostasis. J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
PubMed: 33158990
DOI: 10.1074/JBC.RA120.015306
Page generated: Tue Oct 8 17:00:25 2024

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