Manganese in PDB 1dzq: Lectin Uea-II Complexed with Galactose

The structure of Lectin Uea-II Complexed with Galactose, PDB code: 1dzq was solved by R.Loris, H.De Greve, M.-H.Dao-Thi, J.Messens, A.Imberty, L.Wyns, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	16.00 / 2.85
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	104.870, 104.870, 175.300, 90.00, 90.00, 120.00
R / Rfree (%)	18.6 / 20.9

The structure of Lectin Uea-II Complexed with Galactose also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Manganese atom in the Lectin Uea-II Complexed with Galactose (pdb code 1dzq). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Lectin Uea-II Complexed with Galactose, PDB code: 1dzq:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Lectin Uea-II Complexed with Galactose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Lectin Uea-II Complexed with Galactose within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:21.6 occ:1.00 OD1 A:ASP139 2.0 38.0 1.0 OD2 A:ASP128 2.1 22.8 1.0 OE2 A:GLU126 2.1 33.1 1.0 NE2 A:HIS144 2.2 23.4 1.0 CD A:GLU126 3.0 27.1 1.0 CE1 A:HIS144 3.1 25.5 1.0 CG A:ASP139 3.2 35.4 1.0 CG A:ASP128 3.2 25.0 1.0 CD2 A:HIS144 3.2 26.4 1.0 OE1 A:GLU126 3.3 26.3 1.0 CB A:ASP128 3.6 22.8 1.0 OD2 A:ASP139 3.7 37.1 1.0 OG A:SER154 3.9 22.1 1.0 OD1 A:ASP128 4.3 29.3 1.0 ND1 A:HIS144 4.3 23.5 1.0 CG A:HIS144 4.3 24.6 1.0 O A:ILE152 4.3 24.1 1.0 CB A:ASP139 4.4 32.9 1.0 CG A:GLU126 4.4 21.8 1.0 CA A:CA302 4.4 29.5 1.0 CD1 A:TRP138 4.5 28.5 1.0 NE1 A:TRP138 4.6 30.1 1.0 CA A:ASP139 4.7 32.8 1.0 CD A:PRO140 4.9 32.6 1.0

Manganese binding site 2 out of 4 in the Lectin Uea-II Complexed with Galactose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Lectin Uea-II Complexed with Galactose within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn301 b:14.3 occ:1.00 OE2 B:GLU126 2.1 30.6 1.0 OD1 B:ASP139 2.1 38.0 1.0 OD2 B:ASP128 2.2 21.1 1.0 NE2 B:HIS144 2.2 19.9 1.0 CD B:GLU126 3.0 24.9 1.0 CD2 B:HIS144 3.2 24.8 1.0 CG B:ASP139 3.2 33.4 1.0 OE1 B:GLU126 3.2 23.4 1.0 CE1 B:HIS144 3.2 21.3 1.0 CG B:ASP128 3.3 24.4 1.0 CB B:ASP128 3.7 23.9 1.0 OD2 B:ASP139 3.7 34.7 1.0 OG B:SER154 3.8 22.0 1.0 O B:ILE152 4.2 24.9 1.0 ND1 B:HIS144 4.3 22.1 1.0 CG B:HIS144 4.4 24.0 1.0 CG B:GLU126 4.4 21.2 1.0 OD1 B:ASP128 4.4 28.2 1.0 CB B:ASP139 4.4 31.9 1.0 CD1 B:TRP138 4.5 26.8 1.0 CA B:CA302 4.5 19.4 1.0 NE1 B:TRP138 4.6 28.1 1.0 CA B:ASP139 4.7 31.9 1.0 CD B:PRO140 4.9 30.7 1.0

Manganese binding site 3 out of 4 in the Lectin Uea-II Complexed with Galactose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Lectin Uea-II Complexed with Galactose within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn301 b:18.1 occ:1.00 OD1 C:ASP139 2.0 39.9 1.0 OE2 C:GLU126 2.1 30.2 1.0 OD2 C:ASP128 2.2 24.9 1.0 NE2 C:HIS144 2.2 21.0 1.0 CD C:GLU126 3.0 25.1 1.0 CG C:ASP139 3.2 35.0 1.0 CD2 C:HIS144 3.2 26.3 1.0 CE1 C:HIS144 3.2 23.5 1.0 OE1 C:GLU126 3.2 26.6 1.0 CG C:ASP128 3.3 27.1 1.0 CB C:ASP128 3.7 25.3 1.0 OD2 C:ASP139 3.7 35.8 1.0 OG C:SER154 3.8 26.6 1.0 O C:ILE152 4.2 25.7 1.0 ND1 C:HIS144 4.3 23.7 1.0 CG C:HIS144 4.4 24.8 1.0 CB C:ASP139 4.4 32.9 1.0 OD1 C:ASP128 4.4 30.7 1.0 CG C:GLU126 4.4 21.9 1.0 CD1 C:TRP138 4.5 30.9 1.0 NE1 C:TRP138 4.6 33.8 1.0 CA C:CA302 4.6 33.3 1.0 CA C:ASP139 4.7 32.6 1.0 CD C:PRO140 4.9 32.4 1.0

Manganese binding site 4 out of 4 in the Lectin Uea-II Complexed with Galactose


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Lectin Uea-II Complexed with Galactose within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn301 b:17.9 occ:1.00 OE2 D:GLU126 2.0 29.8 1.0 OD1 D:ASP139 2.1 36.3 1.0 OD2 D:ASP128 2.2 24.4 1.0 NE2 D:HIS144 2.3 24.1 1.0 CD D:GLU126 2.9 24.3 1.0 OE1 D:GLU126 3.2 23.0 1.0 CD2 D:HIS144 3.2 26.4 1.0 CG D:ASP139 3.3 34.3 1.0 CE1 D:HIS144 3.3 24.1 1.0 CG D:ASP128 3.3 26.0 1.0 CB D:ASP128 3.7 24.7 1.0 OG D:SER154 3.8 21.9 1.0 OD2 D:ASP139 3.8 35.6 1.0 O D:ILE152 4.2 25.1 1.0 CG D:GLU126 4.3 21.6 1.0 ND1 D:HIS144 4.4 22.8 1.0 CG D:HIS144 4.4 24.8 1.0 OD1 D:ASP128 4.4 28.5 1.0 CB D:ASP139 4.5 33.0 1.0 CD1 D:TRP138 4.5 30.5 1.0 NE1 D:TRP138 4.6 30.1 1.0 CA D:CA302 4.6 24.2 1.0 CA D:ASP139 4.8 33.7 1.0 CD D:PRO140 4.9 32.8 1.0

R.Loris, H.De Greve, M.-H.Dao-Thi, J.Messens, A.Imberty, L.Wyns. Structural Basis of Carbohydrate Recognition By Lectin II From Ulex Europaeus, A Protein with A Promiscuous Carbohydrate Binding Site J.Mol.Biol. V. 301 987 2000.
ISSN: ISSN 0022-2836
PubMed: 10966800
DOI: 10.1006/JMBI.2000.4016