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Sodium in PDB 6t96: Photorhabdus Laumondii Subsp. Laumondii Lectin PLL3

Protein crystallography data

The structure of Photorhabdus Laumondii Subsp. Laumondii Lectin PLL3, PDB code: 6t96 was solved by F.Melicher, J.Houser, E.Fujdiarova, L.Faltinek, M.Wimmerova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.53 / 1.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.582, 69.416, 76.706, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 19.6

Sodium Binding Sites:

The binding sites of Sodium atom in the Photorhabdus Laumondii Subsp. Laumondii Lectin PLL3 (pdb code 6t96). 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 Laumondii Subsp. Laumondii Lectin PLL3, PDB code: 6t96:

Sodium binding site 1 out of 1 in 6t96

Go back to Sodium Binding Sites List in 6t96
Sodium binding site 1 out of 1 in the Photorhabdus Laumondii Subsp. Laumondii Lectin PLL3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Photorhabdus Laumondii Subsp. Laumondii Lectin PLL3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na701

b:45.2
occ:1.00
O A:ASN79 2.2 29.1 1.0
N A:VAL58 3.0 15.5 1.0
CG2 A:VAL58 3.3 16.6 1.0
C A:ASN79 3.4 29.5 1.0
C A:GLU80 3.5 30.4 1.0
CB A:GLU80 3.5 39.5 1.0
CB A:VAL58 3.6 15.4 1.0
N A:GLY81 3.7 26.8 1.0
O A:GLU80 3.8 30.1 1.0
CA A:ALA57 3.8 15.9 1.0
CA A:GLU80 3.8 34.7 1.0
CA A:VAL58 3.8 14.6 1.0
C A:ALA57 3.8 15.1 1.0
CZ2 A:TRP122 3.9 18.0 1.0
NE1 A:TRP122 4.0 21.3 1.0
CE2 A:TRP122 4.0 18.2 1.0
N A:GLU80 4.0 33.2 1.0
N A:ALA82 4.3 18.6 1.0
CB A:ALA57 4.3 16.4 1.0
C A:GLY81 4.3 25.2 1.0
CA A:GLY81 4.4 26.3 1.0
CB A:ALA82 4.5 17.9 1.0
O A:LEU78 4.5 18.8 1.0
O A:VAL58 4.5 14.2 1.0
N A:ASN79 4.6 19.0 1.0
CA A:ASN79 4.6 23.9 1.0
CG A:GLU80 4.6 43.8 1.0
C A:LEU78 4.6 18.6 1.0
O A:ASN56 4.7 20.8 1.0
CH2 A:TRP122 4.7 17.6 1.0
C A:VAL58 4.7 14.3 1.0
CA A:ALA82 4.8 17.3 1.0
CD1 A:TRP122 4.9 20.3 1.0
O A:GLY81 4.9 33.0 1.0
CD2 A:TRP122 5.0 18.2 1.0
CG1 A:VAL58 5.0 15.7 1.0
CG1 A:VAL100 5.0 14.6 1.0

Reference:

L.Faltinek, E.Fujdiarova, F.Melicher, J.Houser, M.Kasakova, N.Kondakov, L.Kononov, K.Parkan, S.Vidal, M.Wimmerova. Lectin PLL3, A Novel Monomeric Member of the Seven-Bladed Beta-Propeller Lectin Family. Molecules V. 24 2019.
ISSN: ESSN 1420-3049
PubMed: 31835851
DOI: 10.3390/MOLECULES24244540
Page generated: Tue Dec 15 13:04:59 2020

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