Potassium in PDB 6dwo: Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583

The structure of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583, PDB code: 6dwo was solved by A.J.Fisher, Y.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.18 / 2.15
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	163.350, 168.990, 258.520, 90.00, 90.00, 90.00
R / Rfree (%)	15.5 / 18.9

The structure of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Potassium atom in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 (pdb code 6dwo). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583, PDB code: 6dwo:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 within 5.0Å range: probe atom residue distance (Å) B Occ A:K803 b:29.2 occ:1.00 O A:TYR599 2.7 23.1 1.0 OD1 A:ASN20 2.7 22.2 1.0 O A:HOH923 2.7 29.2 1.0 O A:THR597 2.8 24.5 1.0 O A:HOH1172 3.0 23.0 1.0 O A:HOH1298 3.3 42.0 1.0 C A:TYR599 3.6 24.0 1.0 CG A:ASN20 3.7 24.1 1.0 O A:HOH1297 3.9 33.4 1.0 CB A:ASN20 3.9 22.0 1.0 C A:THR597 4.0 25.9 1.0 O A:HOH1192 4.0 42.7 1.0 CA A:PRO600 4.1 24.6 1.0 CA A:ASN20 4.2 22.6 1.0 N A:PRO600 4.2 24.0 1.0 N A:TYR599 4.2 22.4 1.0 CB A:THR597 4.6 26.4 1.0 CA A:TYR599 4.6 22.6 1.0 CA A:THR597 4.7 23.6 1.0 C A:PRO600 4.7 25.1 1.0 C A:GLY598 4.8 25.5 1.0 O A:HOH1013 4.8 31.8 1.0 O A:SER19 4.9 25.0 1.0 N A:GLY598 4.9 22.6 1.0 ND2 A:ASN20 4.9 23.3 1.0 O A:THR591 4.9 27.8 1.0

Potassium binding site 2 out of 4 in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 within 5.0Å range: probe atom residue distance (Å) B Occ B:K1002 b:25.9 occ:1.00 O B:HOH1202 2.7 31.4 1.0 O B:TYR599 2.7 21.7 1.0 OD1 B:ASN20 2.7 24.8 1.0 O B:THR597 2.9 25.3 1.0 O B:HOH1326 2.9 27.4 1.0 O B:HOH1504 3.2 44.0 1.0 O B:HOH1508 3.6 36.5 1.0 C B:TYR599 3.6 24.1 1.0 CG B:ASN20 3.7 23.6 1.0 CB B:ASN20 4.0 23.2 1.0 C B:THR597 4.0 24.0 1.0 O B:HOH1422 4.1 43.5 1.0 CA B:PRO600 4.1 23.3 1.0 N B:PRO600 4.2 23.1 1.0 CA B:ASN20 4.2 22.6 1.0 N B:TYR599 4.3 25.9 1.0 CA B:TYR599 4.6 22.3 1.0 CB B:THR597 4.6 25.3 1.0 O B:HOH1344 4.7 33.0 1.0 C B:PRO600 4.7 22.2 1.0 CA B:THR597 4.8 23.3 1.0 C B:GLY598 4.8 26.1 1.0 O B:THR591 4.9 28.9 1.0 O B:SER19 4.9 22.3 1.0 ND2 B:ASN20 4.9 21.0 1.0 N B:GLY598 4.9 23.2 1.0

Potassium binding site 3 out of 4 in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 within 5.0Å range: probe atom residue distance (Å) B Occ C:K1002 b:29.8 occ:1.00 O C:HOH1169 2.6 43.1 1.0 O C:TYR599 2.6 22.6 1.0 OD1 C:ASN20 2.7 28.8 1.0 O C:THR597 2.9 23.8 1.0 O C:HOH1449 2.9 45.0 1.0 O C:HOH1297 3.0 32.8 1.0 C C:TYR599 3.6 24.3 1.0 CG C:ASN20 3.7 25.2 1.0 CB C:ASN20 3.9 21.6 1.0 C C:THR597 4.0 21.2 1.0 O C:HOH1365 4.0 42.5 1.0 CA C:PRO600 4.1 25.5 1.0 CA C:ASN20 4.2 22.6 1.0 N C:PRO600 4.2 23.8 1.0 N C:TYR599 4.2 23.5 1.0 CA C:TYR599 4.5 24.4 1.0 CB C:THR597 4.6 26.7 1.0 CA C:THR597 4.7 22.8 1.0 C C:GLY598 4.7 26.2 1.0 C C:PRO600 4.8 28.3 1.0 O C:SER19 4.8 23.9 1.0 O C:HOH1226 4.8 38.9 1.0 ND2 C:ASN20 4.9 23.0 1.0 N C:GLY598 4.9 24.6 1.0 O C:THR591 4.9 35.3 1.0

Potassium binding site 4 out of 4 in the Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Alpha-1-2-Mannosidase From Enterococcus Faecalis V583 within 5.0Å range: probe atom residue distance (Å) B Occ D:K1002 b:29.9 occ:1.00 O D:TYR599 2.7 20.6 1.0 O D:HOH1108 2.7 36.3 1.0 OD1 D:ASN20 2.7 30.0 1.0 O D:THR597 2.8 27.3 1.0 O D:HOH1165 3.3 24.1 1.0 O D:HOH1457 3.3 43.9 1.0 C D:TYR599 3.6 23.2 1.0 CG D:ASN20 3.7 27.2 1.0 O D:HOH1259 3.9 37.5 1.0 C D:THR597 3.9 26.6 1.0 O D:HOH1449 3.9 39.6 1.0 CB D:ASN20 4.0 24.4 1.0 O D:HOH1446 4.0 47.1 1.0 CA D:PRO600 4.2 26.0 1.0 N D:TYR599 4.2 24.2 1.0 CA D:ASN20 4.2 25.9 1.0 N D:PRO600 4.2 25.0 1.0 CB D:THR597 4.5 25.7 1.0 CA D:TYR599 4.5 23.4 1.0 CA D:THR597 4.7 25.6 1.0 C D:GLY598 4.7 25.7 1.0 C D:PRO600 4.8 27.1 1.0 N D:GLY598 4.8 25.1 1.0 O D:HOH1177 4.8 38.2 1.0 O D:THR591 4.9 28.4 1.0 O D:SER19 4.9 24.8 1.0 ND2 D:ASN20 4.9 26.1 1.0 OG1 D:THR597 5.0 25.4 1.0

Y.Li, R.Li, H.Yu, X.Sheng, J.Wang, A.J.Fisher, X.Chen. Enterococcus Faecalis Alpha 1-2-Mannosidase (Efman-I): An Efficient Catalyst For Glycoprotein N-Glycan Modification. Febs Lett. 2019.
ISSN: ISSN 0014-5793
PubMed: 31552675
DOI: 10.1002/1873-3468.13618