Calcium in PDB 2fmd: Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin

The structure of Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin, PDB code: 2fmd was solved by L.Buts, A.Garcia-Pino, L.Wyns, R.Loris, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 1.90
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	66.603, 86.351, 91.760, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 22.8

The structure of Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin also contains other interesting chemical elements:

Manganese

(Mn)

1 atom

The binding sites of Calcium atom in the Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin (pdb code 2fmd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin, PDB code: 2fmd:

Calcium binding site 1 out of 1 in the Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Basis of Carbohydrate Recognition By Bowringia Milbraedii Seed Agglutinin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:21.4 occ:1.00 OD2 A:ASP138 2.3 25.0 1.0 O A:HOH425 2.3 17.9 1.0 O A:TYR131 2.4 24.5 1.0 O A:HOH426 2.4 24.9 1.0 OD1 A:ASN133 2.4 26.6 1.0 OD1 A:ASP129 2.4 14.9 1.0 OD2 A:ASP129 2.5 12.5 1.0 CG A:ASP129 2.8 7.2 1.0 CG A:ASP138 3.5 24.1 1.0 C A:TYR131 3.5 19.5 1.0 CG A:ASN133 3.5 27.1 1.0 N A:ASN133 3.9 26.4 1.0 CB A:ASN133 4.1 25.3 1.0 OD1 A:ASP138 4.1 26.9 1.0 MN A:MN302 4.1 34.6 1.0 CB A:ASP129 4.3 12.7 1.0 CA A:TYR131 4.4 20.2 1.0 N A:PRO132 4.4 21.4 1.0 CA A:PRO132 4.4 19.2 1.0 O A:HOH424 4.4 18.8 1.0 C A:PRO132 4.5 24.7 1.0 N A:TYR131 4.5 21.4 1.0 CA A:ASN133 4.6 26.2 1.0 O A:ASP86 4.6 17.1 1.0 CB A:TYR131 4.6 21.3 1.0 CB A:ASP138 4.6 18.0 1.0 ND2 A:ASN133 4.7 20.8 1.0 OD1 A:ASP86 4.7 17.3 1.0 O A:ARG106 4.9 21.1 1.0 CE1 A:HIS143 4.9 20.1 1.0 CB A:ARG106 5.0 18.5 1.0 CA A:ARG106 5.0 20.3 1.0

L.Buts, A.Garcia-Pino, L.Wyns, R.Loris. Structural Basis of Carbohydrate Recognition By A Man(ALPHA1-2)Man-Specific Lectin From Bowringia Milbraedii. Glycobiology V. 16 635 2006.
ISSN: ISSN 0959-6658
PubMed: 16567368
DOI: 10.1093/GLYCOB/CWJ109