Cadmium in PDB 2bmz: Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm)

The structure of Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm), PDB code: 2bmz was solved by J.L.Meagher, H.C.Winter, P.Ezell, I.J.Goldstein, J.A.Stuckey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.99 / 2.4
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	81.623, 81.623, 146.815, 90.00, 90.00, 120.00
R / Rfree (%)	22.8 / 25.6

The binding sites of Cadmium atom in the Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm) (pdb code 2bmz). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm), PDB code: 2bmz:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in the Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm)


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1145 b:32.6 occ:1.00 NE2 B:HIS84 1.9 5.8 1.0 OD2 A:ASP41 2.2 24.1 1.0 ND1 A:HIS54 2.4 23.3 1.0 OD1 A:ASP41 2.7 20.2 1.0 CG A:ASP41 2.7 26.7 1.0 CE1 B:HIS84 2.8 20.6 1.0 CD2 B:HIS84 2.9 21.9 1.0 O B:HOH2041 2.9 51.8 1.0 CE1 A:HIS54 3.3 23.3 1.0 CG A:HIS54 3.4 22.3 1.0 O A:HOH2059 3.6 51.8 1.0 CB A:HIS54 3.7 25.3 1.0 ND1 B:HIS84 3.9 20.6 1.0 CG B:HIS84 4.0 22.6 1.0 CB A:ASP41 4.3 25.2 1.0 OD2 B:ASP35 4.4 25.6 1.0 CA A:HIS54 4.4 27.7 1.0 NE2 A:HIS54 4.4 24.1 1.0 O A:HOH2032 4.5 44.9 1.0 CD2 A:HIS54 4.5 23.5 1.0 O A:HOH2058 4.5 40.6 1.0 CE1 A:PHE32 4.7 39.7 1.0 CE2 B:TYR83 4.8 35.0 1.0 CZ A:PHE32 4.8 39.3 1.0

Cadmium binding site 2 out of 2 in the Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm)


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Banana Lectin Bound to Xyl-B1,3 Man-A-O-Methyl (Xm) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1146 b:74.0 occ:0.50 O A:HOH2070 3.3 56.4 1.0 O A:HOH2067 3.4 48.1 1.0 ND1 A:HIS84 3.6 59.3 1.0 CE1 A:HIS84 4.3 60.3 1.0 CA A:HIS84 4.3 53.0 1.0 N A:HIS84 4.5 52.9 1.0 CG A:HIS84 4.7 57.7 1.0 CB A:HIS84 5.0 55.0 1.0

J.L.Meagher, H.C.Winter, P.Ezell, I.J.Goldstein, J.A.Stuckey. Crystal Structure of Banana Lectin Reveals A Novel Second Sugar Binding Site. Glycobiology V. 15 1033 2005.
ISSN: ISSN 0959-6658
PubMed: 15944373
DOI: 10.1093/GLYCOB/CWI088