Sodium in PDB 5mxg: Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide

The structure of Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide, PDB code: 5mxg was solved by G.Jancarikova, J.Houser, G.Demo, M.Wimmerova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.85 / 2.20
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	80.309, 80.309, 112.973, 90.00, 90.00, 120.00
R / Rfree (%)	18.5 / 22.8

The binding sites of Sodium atom in the Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide (pdb code 5mxg). 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 Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide, PDB code: 5mxg:

Sodium binding site 1 out of 1 in the Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Photorhabdus Asymbiotica Lectin (Phl) in Complex with Blood Group H Trisaccharide within 5.0Å range: probe atom residue distance (Å) B Occ A:Na410 b:41.4 occ:1.00 O A:HOH550 2.1 34.5 1.0 O A:VAL179 2.2 29.8 1.0 O A:HOH584 2.3 30.1 1.0 O A:HOH535 2.5 26.3 1.0 OG1 A:THR178 3.3 34.9 1.0 C A:VAL179 3.4 29.6 1.0 N A:VAL179 3.8 29.8 1.0 O A:HOH589 4.1 29.4 1.0 CA A:VAL179 4.2 28.1 1.0 O A:HOH575 4.2 20.2 1.0 CG1 A:VAL179 4.2 29.5 1.0 ND1 A:HIS180 4.4 35.9 1.0 CD2 A:TYR132 4.4 32.4 1.0 N A:HIS180 4.5 26.8 1.0 CG1 A:VAL227 4.5 34.0 1.0 O A:ILE131 4.6 28.7 1.0 CB A:THR178 4.6 34.5 1.0 C A:THR178 4.6 32.6 1.0 CE2 A:TYR132 4.6 34.0 1.0 CA A:HIS180 4.7 29.3 1.0 CA A:THR178 4.8 32.5 1.0 CB A:VAL179 4.9 30.9 1.0 O A:HOH566 4.9 38.0 1.0

G.Jancarikova, J.Houser, P.Dobes, G.Demo, P.Hyrsl, M.Wimmerova. Characterization of Novel Bangle Lectin From Photorhabdus Asymbiotica with Dual Sugar-Binding Specificity and Its Effect on Host Immunity. Plos Pathog. V. 13 06564 2017.
ISSN: ESSN 1553-7374
PubMed: 28806750
DOI: 10.1371/JOURNAL.PPAT.1006564