Magnesium in PDB 3vv1: Crystal Structure of Caenorhabditis Elegans Galectin Lec-6

The structure of Crystal Structure of Caenorhabditis Elegans Galectin Lec-6, PDB code: 3vv1 was solved by H.Makyio, T.Takeuchi, M.Tamura, K.Nishiyama, H.Takahashi, H.Natsugari, Y.Arata, K.Kasai, Y.Yamada, S.Wakatsuki, R.Kato, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.50
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	69.323, 69.323, 120.131, 90.00, 90.00, 120.00
R / Rfree (%)	14.7 / 17.9

The binding sites of Magnesium atom in the Crystal Structure of Caenorhabditis Elegans Galectin Lec-6 (pdb code 3vv1). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Caenorhabditis Elegans Galectin Lec-6, PDB code: 3vv1:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of Caenorhabditis Elegans Galectin Lec-6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Caenorhabditis Elegans Galectin Lec-6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg203 b:73.8 occ:0.33 O A:HOH447 2.5 61.2 1.0 O A:HOH435 2.8 37.8 1.0 OD1 A:ASP44 4.0 35.7 1.0 O A:ALA43 4.5 31.0 1.0 O A:HOH478 4.9 44.3 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of Caenorhabditis Elegans Galectin Lec-6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Caenorhabditis Elegans Galectin Lec-6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg203 b:17.8 occ:0.33 O B:HOH308 2.4 13.3 1.0 O B:HOH309 2.5 13.6 1.0 MG B:MG204 3.2 16.4 0.3 ND2 B:ASN30 4.3 15.2 1.0 OD1 B:ASN30 4.3 15.1 1.0 O B:ASN103 4.4 18.2 1.0 O B:HOH354 4.7 24.1 1.0 CG B:ASN30 4.7 14.6 1.0 O B:HOH317 4.9 14.9 1.0 ND2 B:ASN103 4.9 13.9 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of Caenorhabditis Elegans Galectin Lec-6


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Caenorhabditis Elegans Galectin Lec-6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg204 b:16.4 occ:0.33 O B:HOH309 2.4 13.6 1.0 O B:HOH317 2.4 14.9 1.0 MG B:MG203 3.2 17.8 0.3 OD1 B:ASN30 3.9 15.1 1.0 O B:HOH349 4.1 23.8 1.0 O B:HOH374 4.2 23.6 1.0 ND2 B:ASN103 4.5 13.9 1.0 CG B:ASN30 4.8 14.6 1.0 O B:HOH308 5.0 13.3 1.0

H.Makyio, T.Takeuchi, M.Tamura, K.Nishiyama, H.Takahashi, H.Natsugari, Y.Arata, K.Kasai, Y.Yamada, S.Wakatsuki, R.Kato. Structural Basis of Preferential Binding of Fucose-Containing Saccharide By the Caenorhabditis Elegans Galectin Lec-6 Glycobiology V. 23 797 2013.
ISSN: ISSN 0959-6658
PubMed: 23481096
DOI: 10.1093/GLYCOB/CWT017