Manganese in PDB 7mgc: Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac

The structure of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac, PDB code: 7mgc was solved by B.E.Partridge, P.H.Winegar, C.A.Mirkin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	84.70 / 2.92
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.33, 117.34, 122.4, 90, 90, 90
R / Rfree (%)	22.9 / 27.7

The structure of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Manganese atom in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac (pdb code 7mgc). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac, PDB code: 7mgc:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn302 b:72.4 occ:1.00 OD1 A:ASP19 1.9 66.9 1.0 OE2 A:GLU8 1.9 37.7 1.0 OD2 A:ASP10 2.1 35.6 1.0 NE2 A:HIS24 2.1 46.8 1.0 O A:HOH401 2.4 40.5 1.0 CG A:ASP19 2.9 67.1 1.0 CD A:GLU8 3.0 33.6 1.0 CE1 A:HIS24 3.1 47.4 1.0 CD2 A:HIS24 3.1 51.5 1.0 CG A:ASP10 3.1 43.5 1.0 OD2 A:ASP19 3.4 59.4 1.0 OE1 A:GLU8 3.5 30.6 1.0 CB A:ASP10 3.6 44.0 1.0 OG A:SER34 3.8 49.0 1.0 CB A:ASP19 4.1 65.7 1.0 ND1 A:HIS24 4.2 47.7 1.0 CG A:HIS24 4.2 47.1 1.0 CG A:GLU8 4.2 34.8 1.0 OD1 A:ASP10 4.2 46.4 1.0 CA A:CA303 4.4 47.5 1.0 O A:VAL32 4.4 61.1 1.0 CA A:ASP19 4.5 64.8 1.0

Manganese binding site 2 out of 4 in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn302 b:60.0 occ:1.00 OD1 B:ASP19 1.8 53.7 1.0 OE2 B:GLU8 2.0 54.0 1.0 OD2 B:ASP10 2.2 35.7 1.0 NE2 B:HIS24 2.5 54.1 1.0 CG B:ASP19 2.8 52.2 1.0 CD B:GLU8 3.1 47.9 1.0 OD2 B:ASP19 3.3 43.7 1.0 CG B:ASP10 3.4 39.9 1.0 CE1 B:HIS24 3.4 55.3 1.0 OE1 B:GLU8 3.5 46.9 1.0 CD2 B:HIS24 3.5 56.9 1.0 OG B:SER34 3.8 45.8 1.0 CB B:ASP10 3.9 44.1 1.0 O B:VAL32 4.0 44.2 1.0 CB B:ASP19 4.1 55.4 1.0 CG B:GLU8 4.4 48.0 1.0 CA B:CA303 4.4 45.5 1.0 CA B:ASP19 4.4 59.6 1.0 OD1 B:ASP10 4.4 37.9 1.0 ND1 B:HIS24 4.6 55.4 1.0 CG B:HIS24 4.6 53.0 1.0

Manganese binding site 3 out of 4 in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn302 b:64.3 occ:1.00 OE2 C:GLU8 1.9 63.7 1.0 OD1 C:ASP19 2.0 65.7 1.0 OD2 C:ASP10 2.1 50.5 1.0 NE2 C:HIS24 2.5 52.1 1.0 CD C:GLU8 2.8 47.4 1.0 O C:HOH401 2.9 29.9 1.0 CG C:ASP19 3.0 62.3 1.0 OE1 C:GLU8 3.2 44.7 1.0 CG C:ASP10 3.2 48.5 1.0 OD2 C:ASP19 3.4 54.5 1.0 CE1 C:HIS24 3.5 58.3 1.0 CD2 C:HIS24 3.5 54.4 1.0 CB C:ASP10 3.7 45.4 1.0 OG C:SER34 3.8 45.5 1.0 O C:VAL32 4.0 60.7 1.0 CG C:GLU8 4.1 41.7 1.0 CB C:ASP19 4.3 61.8 1.0 CA C:CA303 4.3 57.0 1.0 OD1 C:ASP10 4.3 51.5 1.0 ND1 C:HIS24 4.6 54.5 1.0 CG C:HIS24 4.6 50.0 1.0 CA C:ASP19 4.7 59.5 1.0

Manganese binding site 4 out of 4 in the Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Concanavalin A Bound to A Dna Glycoconjugate, G(Man-T)Ac within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn302 b:47.5 occ:1.00 OE2 D:GLU8 1.7 62.1 1.0 OD2 D:ASP10 2.1 49.2 1.0 OD1 D:ASP19 2.2 49.5 1.0 O D:HOH401 2.5 22.5 1.0 NE2 D:HIS24 2.6 42.3 1.0 CD D:GLU8 2.7 51.1 1.0 OE1 D:GLU8 3.1 50.3 1.0 CG D:ASP19 3.1 47.7 1.0 CG D:ASP10 3.2 50.7 1.0 OD2 D:ASP19 3.5 38.8 1.0 CD2 D:HIS24 3.5 46.4 1.0 CE1 D:HIS24 3.5 45.4 1.0 CB D:ASP10 3.6 47.8 1.0 OG D:SER34 3.8 60.8 1.0 CG D:GLU8 4.0 48.3 1.0 O D:VAL32 4.0 51.5 1.0 OD1 D:ASP10 4.3 58.9 1.0 CA D:CA303 4.3 49.1 1.0 CB D:ASP19 4.4 50.9 1.0 ND1 D:HIS24 4.6 47.0 1.0 CG D:HIS24 4.7 45.6 1.0 CA D:ASP19 4.9 52.4 1.0

B.E.Partridge, P.H.Winegar, Z.Han, C.A.Mirkin. Redefining Protein Interfaces Within Protein Single Crystals with Dna Journal of the American 2021CHEMICAL Society.
DOI: 10.1021/JACS.1C04191