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Cadmium in PDB 5byn: Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid

Protein crystallography data

The structure of Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid, PDB code: 5byn was solved by R.B.Nobrega, J.C.Silva-Filho, C.Y.Kawasoko, O.E.D.Rodrigues, R.S.Schwab, A.L.Braga, P.Delatorre, B.S.Cavada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.91 / 2.65
Space group F 2 3
Cell size a, b, c (Å), α, β, γ (°) 190.640, 190.640, 190.640, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 27.8

Other elements in 5byn:

The structure of Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid also contains other interesting chemical elements:

Manganese (Mn) 2 atoms
Calcium (Ca) 2 atoms

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid (pdb code 5byn). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total only one binding site of Cadmium was determined in the Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid, PDB code: 5byn:

Cadmium binding site 1 out of 1 in 5byn

Go back to Cadmium Binding Sites List in 5byn
Cadmium binding site 1 out of 1 in the Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd303

b:54.9
occ:1.00
O A:HOH409 2.1 30.4 1.0
O A:HOH418 2.1 34.2 1.0
OE2 A:GLU87 2.1 47.1 1.0
OE1 A:GLU87 2.4 50.3 1.0
CD A:GLU87 2.5 47.6 1.0
CG A:GLU87 4.0 45.1 1.0
NE2 A:HIS180 4.5 44.4 1.0
CG A:GLU183 4.5 48.1 1.0
OG A:SER184 4.7 57.2 1.0
N A:SER184 4.9 49.1 1.0
CE1 A:HIS180 4.9 45.0 1.0
CB A:GLU87 5.0 44.5 1.0

Reference:

R.B.Nobrega, J.C.Silva-Filho, C.Y.Kawasoko, O.E.D.Rodrigues, R.S.Schwab, A.L.Braga, P.Delatorre, B.S.Cavada. Canavalia Maritima Lectin Complexed with Synthetic Selenoamino Acid To Be Published.
Page generated: Sat Dec 12 08:26:20 2020

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