Calcium in PDB 1sbe: Soybean Agglutinin From Glycine Max

The structure of Soybean Agglutinin From Glycine Max, PDB code: 1sbe was solved by A.Dessen, L.R.Olsen, D.Gupta, S.Sabesan, J.C.Sacchettini, C.F.Brewer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	99.00 / 2.80
Space group	P 64 2 2
Cell size a, b, c (Å), α, β, γ (°)	143.300, 143.300, 107.800, 90.00, 90.00, 120.00
R / Rfree (%)	21.2 / n/a

The structure of Soybean Agglutinin From Glycine Max also contains other interesting chemical elements:

Manganese

(Mn)

1 atom

The binding sites of Calcium atom in the Soybean Agglutinin From Glycine Max (pdb code 1sbe). 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 Soybean Agglutinin From Glycine Max, PDB code: 1sbe:

Calcium binding site 1 out of 1 in the Soybean Agglutinin From Glycine Max


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Soybean Agglutinin From Glycine Max within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca541 b:20.3 occ:1.00 O A:HOH570 2.0 2.0 1.0 OD2 A:ASP133 2.2 15.1 1.0 OD1 A:ASP126 2.3 21.1 1.0 O A:PHE128 2.6 1.0 1.0 OD2 A:ASP126 2.8 1.0 1.0 O A:HOH574 2.9 11.5 1.0 OD1 A:ASN130 2.9 26.4 1.0 CG A:ASP126 2.9 14.8 1.0 CG A:ASP133 3.2 24.2 1.0 CG A:ASN130 3.4 25.4 1.0 OD1 A:ASP133 3.7 3.1 1.0 C A:PHE128 3.7 9.6 1.0 CB A:ASN130 4.0 18.0 1.0 OD1 A:ASP88 4.0 21.8 1.0 ND2 A:ASN130 4.1 11.2 1.0 N A:ASN130 4.2 15.9 1.0 O A:GLY106 4.2 22.0 1.0 CZ2 A:TRP132 4.3 31.8 1.0 O A:ASP88 4.4 17.4 1.0 CA A:PHE128 4.4 15.5 1.0 CB A:ASP126 4.4 11.0 1.0 NE1 A:TRP132 4.4 35.4 1.0 CB A:PHE128 4.4 15.9 1.0 CA A:GLY106 4.5 9.9 1.0 CB A:ASP133 4.6 32.4 1.0 N A:PHE128 4.6 16.9 1.0 CE2 A:TRP132 4.6 35.5 1.0 CA A:ASN130 4.7 15.7 1.0 CD2 A:PHE128 4.8 6.1 1.0 C A:GLY106 4.8 18.7 1.0 N A:ARG129 4.8 10.9 1.0 MN A:MN540 5.0 28.6 1.0

L.R.Olsen, A.Dessen, D.Gupta, S.Sabesan, J.C.Sacchettini, C.F.Brewer. X-Ray Crystallographic Studies of Unique Cross-Linked Lattices Between Four Isomeric Biantennary Oligosaccharides and Soybean Agglutinin. Biochemistry V. 36 15073 1997.
ISSN: ISSN 0006-2960
PubMed: 9398234
DOI: 10.1021/BI971828+