Chlorine in PDB 8axt: Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota

The structure of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota, PDB code: 8axt was solved by H.Sakanaka, T.S.Nielsen, M.J.Pichler, E.Nordberg Karlsson, M.Abou Hachem, J.P.Morth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	72.73 / 1.59
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	72.96, 56.79, 146.72, 90, 94.55, 90
R / Rfree (%)	16.8 / 20.2

The structure of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Chlorine atom in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota (pdb code 8axt). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota, PDB code: 8axt:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl702 b:19.2 occ:1.00 HH22 A:ARG234 2.2 17.0 1.0 HH22 A:ARG305 2.4 16.6 1.0 HH12 A:ARG234 2.9 18.3 1.0 NH2 A:ARG234 3.1 14.2 1.0 O A:HOH912 3.1 23.4 1.0 O A:HOH1277 3.2 29.1 1.0 HZ3 A:TRP212 3.2 19.6 1.0 HH12 A:ARG305 3.2 17.8 1.0 NH2 A:ARG305 3.3 13.8 1.0 HH2 A:TRP212 3.3 15.6 1.0 HZ A:PHE302 3.4 18.7 1.0 NH1 A:ARG234 3.6 15.2 1.0 HH21 A:ARG234 3.6 17.0 1.0 CZ A:ARG234 3.8 15.4 1.0 HH21 A:ARG305 3.8 16.6 1.0 CZ3 A:TRP212 3.9 16.4 1.0 NH1 A:ARG305 3.9 14.8 1.0 O A:HOH949 3.9 23.3 1.0 CH2 A:TRP212 3.9 13.0 1.0 CZ A:PHE302 4.0 15.6 1.0 CZ A:ARG305 4.1 11.1 1.0 HE2 A:HIS349 4.2 15.2 1.0 HH11 A:ARG234 4.4 18.3 1.0 OD2 A:ASP345 4.5 29.6 1.0 HE1 A:PHE302 4.5 20.1 1.0 CE1 A:PHE302 4.6 16.8 1.0 HH11 A:ARG305 4.7 17.8 1.0 CE2 A:PHE302 4.8 16.3 1.0 HE2 A:PHE302 4.8 19.6 1.0 O A:HOH1408 4.9 36.0 1.0 HE22 A:GLN367 4.9 16.9 1.0 NE2 A:HIS349 4.9 12.7 1.0

Chlorine binding site 2 out of 5 in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl702 b:24.6 occ:1.00 H B:ASP478 2.6 23.0 1.0 HG13 B:VAL477 2.9 23.8 1.0 O B:HOH906 3.2 23.7 1.0 HA B:VAL477 3.3 23.8 1.0 HG3 B:PRO426 3.3 23.9 1.0 HB3 B:ASP478 3.4 43.1 1.0 N B:ASP478 3.4 19.2 1.0 HB3 B:PRO426 3.5 26.0 1.0 HB2 B:ASP478 3.7 43.1 1.0 HG2 B:PRO426 3.8 23.9 1.0 CG1 B:VAL477 3.8 19.8 1.0 CG B:PRO426 3.9 19.9 1.0 CB B:ASP478 3.9 36.0 1.0 HD11 B:LEU586 4.0 17.0 1.0 O B:HOH1097 4.0 38.4 1.0 CA B:VAL477 4.0 19.8 1.0 HG12 B:VAL477 4.1 23.8 1.0 CB B:PRO426 4.1 21.6 1.0 CA B:ASP478 4.2 25.3 1.0 C B:VAL477 4.2 20.3 1.0 O B:ASP478 4.4 36.9 1.0 HG22 B:VAL477 4.4 16.6 1.0 HB2 B:PRO426 4.5 26.0 1.0 CB B:VAL477 4.5 17.0 1.0 HG11 B:VAL477 4.5 23.8 1.0 C B:ASP478 4.8 29.0 1.0 HE B:ARG475 4.9 23.4 1.0 O B:VAL476 4.9 17.0 1.0 O B:HOH909 4.9 23.8 1.0 CD1 B:LEU586 4.9 14.2 1.0 O B:HOH1229 5.0 25.9 1.0

Chlorine binding site 3 out of 5 in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl703 b:24.3 occ:1.00 HE22 B:GLN355 2.3 28.3 1.0 H B:ASP274 2.6 25.0 1.0 HH12 B:ARG379 2.6 31.9 1.0 HB3 B:ASP274 2.9 28.0 1.0 NE2 B:GLN355 3.1 23.6 1.0 HB2 B:ASP273 3.1 25.6 1.0 HH11 B:ARG379 3.2 31.9 1.0 NH1 B:ARG379 3.2 26.6 1.0 N B:ASP274 3.3 20.8 1.0 HB3 B:LEU272 3.3 18.8 1.0 HA B:LYS358 3.4 28.6 1.0 H B:ASP273 3.4 17.9 1.0 HE21 B:GLN355 3.5 28.3 1.0 CG B:ASP274 3.5 29.6 1.0 HG2 B:LYS358 3.5 46.1 1.0 CB B:ASP274 3.5 23.3 1.0 N B:ASP273 3.8 14.9 1.0 OD1 B:ASP274 3.8 22.1 1.0 OD2 B:ASP274 3.8 26.4 1.0 CB B:ASP273 4.0 21.3 1.0 HB2 B:LEU272 4.0 18.8 1.0 CA B:ASP274 4.0 21.6 1.0 CB B:LEU272 4.1 15.7 1.0 CD B:GLN355 4.1 20.3 1.0 C B:ASP273 4.1 20.4 1.0 HD13 B:LEU272 4.2 27.2 1.0 CA B:ASP273 4.2 16.0 1.0 O B:LYS358 4.2 22.6 1.0 OE1 B:GLN355 4.2 17.5 1.0 CA B:LYS358 4.3 23.8 1.0 CG B:LYS358 4.4 38.4 1.0 HB2 B:ASP274 4.4 28.0 1.0 HZ3 B:LYS358 4.4 58.2 1.0 HB3 B:ASP273 4.4 25.6 1.0 CZ B:ARG379 4.5 27.1 1.0 C B:LEU272 4.6 18.3 1.0 HA B:ASP274 4.6 26.0 1.0 HH22 B:ARG379 4.6 30.4 1.0 O B:HOH1242 4.6 44.4 1.0 HG3 B:LYS358 4.6 46.1 1.0 C B:LYS358 4.8 24.1 1.0 HD12 B:LEU272 4.8 27.2 1.0 CD1 B:LEU272 4.8 22.6 1.0 CB B:LYS358 4.8 25.2 1.0 HB2 B:LYS358 4.9 30.3 1.0 CA B:LEU272 4.9 18.7 1.0 NH2 B:ARG379 4.9 25.4 1.0 HD2 B:ARG379 5.0 39.4 1.0

Chlorine binding site 4 out of 5 in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl704 b:19.4 occ:1.00 HH21 B:ARG106 2.5 25.0 1.0 H B:PHE113 2.5 25.8 1.0 HE21 B:GLN108 2.6 25.6 1.0 H B:TYR85 2.8 30.5 1.0 HB2 B:TYR85 2.9 33.0 1.0 H B:GLY86 2.9 30.4 1.0 HE2 B:PHE115 3.0 27.1 1.0 HA3 B:GLY112 3.1 27.8 1.0 HG2 B:GLN108 3.2 22.2 1.0 NH2 B:ARG106 3.2 20.8 1.0 HG3 B:GLN108 3.3 22.2 1.0 O B:HOH1042 3.3 17.1 1.0 HD2 B:TYR85 3.3 27.4 1.0 N B:PHE113 3.4 21.5 1.0 HD2 B:PHE113 3.4 30.1 1.0 NE2 B:GLN108 3.4 21.4 1.0 HH22 B:ARG106 3.5 25.0 1.0 N B:TYR85 3.6 25.4 1.0 CG B:GLN108 3.6 18.5 1.0 N B:GLY86 3.7 25.3 1.0 HA2 B:GLY112 3.7 27.8 1.0 CA B:GLY112 3.8 23.1 1.0 CB B:TYR85 3.8 27.5 1.0 HB2 B:PHE113 3.8 24.8 1.0 HD2 B:PHE115 3.9 23.8 1.0 CE2 B:PHE115 3.9 22.6 1.0 HA B:ASN84 3.9 27.5 1.0 HE B:ARG106 4.0 23.6 1.0 HE22 B:GLN108 4.0 25.6 1.0 CD B:GLN108 4.1 17.7 1.0 CA B:TYR85 4.1 25.3 1.0 C B:GLY112 4.1 24.5 1.0 CD2 B:TYR85 4.1 22.8 1.0 CD2 B:PHE113 4.1 25.1 1.0 O B:PHE113 4.2 19.8 1.0 CZ B:ARG106 4.3 17.6 1.0 CD2 B:PHE115 4.3 19.9 1.0 CA B:PHE113 4.3 19.9 1.0 O B:PRO83 4.4 21.5 1.0 C B:TYR85 4.4 29.2 1.0 CB B:PHE113 4.4 20.7 1.0 HB3 B:TYR85 4.4 33.0 1.0 HA3 B:GLY86 4.4 27.8 1.0 CG B:TYR85 4.4 27.1 1.0 NE B:ARG106 4.5 19.7 1.0 C B:ASN84 4.6 23.6 1.0 C B:PHE113 4.6 20.8 1.0 CA B:GLY86 4.7 23.1 1.0 CG B:PHE113 4.7 21.7 1.0 CA B:ASN84 4.7 22.9 1.0 O B:HOH1011 4.9 18.7 1.0 CB B:GLN108 5.0 17.2 1.0

Chlorine binding site 5 out of 5 in the Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin- Associated Human Gut Microbiota within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl705 b:21.4 occ:1.00 HH22 B:ARG234 2.2 18.2 1.0 HH22 B:ARG305 2.4 18.3 1.0 O B:HOH974 2.7 38.5 1.0 HH12 B:ARG234 2.9 16.7 1.0 NH2 B:ARG234 3.1 15.2 1.0 O B:HOH935 3.2 17.8 1.0 HZ3 B:TRP212 3.2 15.6 1.0 O B:HOH1137 3.2 28.4 1.0 HH2 B:TRP212 3.3 16.3 1.0 NH2 B:ARG305 3.3 15.2 1.0 HH12 B:ARG305 3.3 18.3 1.0 HZ B:PHE302 3.4 23.9 1.0 NH1 B:ARG234 3.6 13.9 1.0 HH21 B:ARG234 3.6 18.2 1.0 HH21 B:ARG305 3.8 18.3 1.0 CZ B:ARG234 3.8 14.5 1.0 CZ3 B:TRP212 3.9 13.0 1.0 CH2 B:TRP212 3.9 13.6 1.0 NH1 B:ARG305 4.0 15.2 1.0 O B:HOH845 4.0 23.7 1.0 CZ B:PHE302 4.0 20.0 1.0 CZ B:ARG305 4.1 13.1 1.0 HE2 B:HIS349 4.3 20.3 1.0 HH11 B:ARG234 4.4 16.7 1.0 OD1 B:ASP345 4.4 29.5 1.0 HE1 B:PHE302 4.5 20.7 1.0 CE1 B:PHE302 4.6 17.2 1.0 HH11 B:ARG305 4.8 18.3 1.0 HE2 B:PHE302 4.8 25.1 1.0 CE2 B:PHE302 4.8 20.9 1.0 HE22 B:GLN367 4.9 23.7 1.0 NE2 B:HIS349 4.9 16.9 1.0 O B:HOH1352 4.9 35.1 1.0

H.Sakanaka, T.S.Nielsen, M.J.Pichler, E.Nordberg Karlsson, M.Abou Hachem, J.P.Morth. Sialidases and Fucosidases of Akkermansia Muciniphila Are Key For Rapid Growth on Colonic Mucin and Nutrient Sharing Amongst Mucin-Associated Human Gut Microbiota To Be Published.