Magnesium in PDB 8uel: Crystal Structure of Enolase From Litopenaeus Vannamei

The structure of Crystal Structure of Enolase From Litopenaeus Vannamei, PDB code: 8uel was solved by X.Chang, G.Zhao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.68 / 2.49
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	79.613, 86.571, 155.881, 90, 90, 90
R / Rfree (%)	16.8 / 22.4

The binding sites of Magnesium atom in the Crystal Structure of Enolase From Litopenaeus Vannamei (pdb code 8uel). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of Enolase From Litopenaeus Vannamei, PDB code: 8uel:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of Enolase From Litopenaeus Vannamei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Enolase From Litopenaeus Vannamei within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:26.8 occ:1.00 O A:HOH640 2.1 31.0 1.0 OE2 A:GLU294 2.2 33.5 1.0 OD2 A:ASP244 2.2 33.5 1.0 OD2 A:ASP319 2.3 41.3 1.0 O A:HOH751 2.3 37.6 1.0 O A:HOH758 2.5 32.2 1.0 CG A:ASP244 3.2 29.3 1.0 CG A:ASP319 3.3 35.9 1.0 CD A:GLU294 3.3 33.1 1.0 OD1 A:ASP244 3.5 28.0 1.0 CB A:ASP319 3.9 30.3 1.0 NZ A:LYS395 4.0 32.7 1.0 O A:HOH615 4.0 37.3 1.0 OE1 A:GLU294 4.1 30.6 1.0 CG A:GLU294 4.2 25.3 1.0 OD2 A:ASP295 4.3 32.0 1.0 OD1 A:ASP319 4.3 35.8 1.0 NZ A:LYS344 4.3 32.4 1.0 CD2 A:LEU342 4.5 29.4 1.0 CB A:ASP244 4.5 27.1 1.0 OE1 A:GLN165 4.7 34.6 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of Enolase From Litopenaeus Vannamei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Enolase From Litopenaeus Vannamei within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:45.0 occ:1.00 O A:HOH641 2.6 41.0 1.0 NE2 A:HIS372 2.9 27.2 1.0 OE2 A:GLU166 3.0 38.4 1.0 OE1 A:GLU166 3.4 40.6 1.0 CD A:GLU166 3.4 40.1 1.0 CE1 A:HIS372 3.6 29.7 1.0 CG A:GLU209 3.9 42.1 1.0 CD2 A:HIS372 4.0 28.5 1.0 NZ A:LYS395 4.0 32.7 1.0 CD A:LYS395 4.2 38.4 1.0 CE A:LYS395 4.3 33.0 1.0 O A:HOH758 4.4 32.2 1.0 ND2 A:ASN150 4.5 33.1 1.0 CG A:LYS395 4.6 32.7 1.0 CD A:GLU209 4.6 45.8 1.0 OE1 A:GLU209 4.7 46.6 1.0 CB A:GLU209 4.7 29.2 1.0 CG A:GLU166 4.7 35.2 1.0 ND1 A:HIS372 4.8 30.6 1.0 CB A:ASN150 4.9 30.7 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of Enolase From Litopenaeus Vannamei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Enolase From Litopenaeus Vannamei within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:30.4 occ:1.00 O B:HOH661 1.9 40.2 1.0 O2' B:PEP501 2.1 41.8 0.9 OD2 B:ASP319 2.1 37.0 1.0 OE2 B:GLU294 2.2 36.2 1.0 O1 B:PEP501 2.3 47.6 0.9 OD2 B:ASP244 2.3 44.3 1.0 C1 B:PEP501 2.5 47.8 0.9 CG B:ASP244 3.1 40.8 1.0 CG B:ASP319 3.2 40.2 1.0 CD B:GLU294 3.3 39.6 1.0 OD1 B:ASP244 3.3 39.0 1.0 CB B:ASP319 3.8 37.0 1.0 C2 B:PEP501 4.0 47.5 0.9 NZ B:LYS395 4.0 36.2 1.0 CG B:GLU294 4.0 38.4 1.0 OD2 B:ASP295 4.2 45.3 1.0 OE1 B:GLU294 4.2 31.3 1.0 OE1 B:GLN165 4.3 46.7 1.0 OD1 B:ASP319 4.3 41.6 1.0 NZ B:LYS344 4.4 36.8 1.0 CB B:ASP244 4.5 36.6 1.0 CD2 B:LEU342 4.5 29.8 1.0 O2 B:PEP501 4.6 42.1 0.9 OE2 B:GLU166 4.7 46.0 1.0 CG B:ASP295 4.9 42.4 1.0 H31 B:PEP501 4.9 47.8 0.9 MG B:MG503 4.9 56.3 1.0 C3 B:PEP501 4.9 39.9 0.9

Magnesium binding site 4 out of 4 in the Crystal Structure of Enolase From Litopenaeus Vannamei


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Enolase From Litopenaeus Vannamei within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg503 b:56.3 occ:1.00 O B:HOH669 2.7 48.0 1.0 OD1 B:ASP320 2.7 50.3 1.0 NZ B:LYS344 3.1 36.8 1.0 OE2 B:GLU44 3.3 44.0 1.0 CG B:ASP320 3.5 53.7 1.0 OD2 B:ASP319 3.6 37.0 1.0 NH2 B:ARG373 3.6 37.4 1.0 O2P B:PEP501 3.6 44.6 0.9 NE2 B:GLN347 3.7 36.6 1.0 OD2 B:ASP320 3.7 55.8 1.0 O B:SER39 3.8 52.4 1.0 OD1 B:ASP319 3.9 41.6 1.0 N B:GLY41 3.9 49.8 1.0 CG B:ASP319 4.1 40.2 1.0 O2 B:PEP501 4.1 42.1 0.9 O1 B:PEP501 4.2 47.6 0.9 CE B:LYS344 4.4 34.1 1.0 CD B:GLU44 4.5 46.9 1.0 CZ B:ARG373 4.5 36.7 1.0 CA B:THR40 4.6 49.4 1.0 P B:PEP501 4.6 30.0 0.9 C B:THR40 4.7 48.5 1.0 CA B:GLY41 4.7 43.9 1.0 CD B:LYS344 4.7 30.4 1.0 C1 B:PEP501 4.7 47.8 0.9 C B:SER39 4.8 57.6 1.0 CB B:ASP320 4.8 40.6 1.0 CD B:GLN347 4.8 33.3 1.0 MG B:MG502 4.9 30.4 1.0 N B:ASP320 5.0 36.3 1.0 NE B:ARG373 5.0 32.7 1.0

X.Chang, T.Zhang, J.Zang, C.Lv, G.Zhao. Characterization and Structural Analyses of Enolase From Shrimp ( Litopenaeus Vannamei ). J.Agric.Food Chem. 2023.
ISSN: ESSN 1520-5118
PubMed: 38033172
DOI: 10.1021/ACS.JAFC.3C07135