Chlorine in PDB 4zs9: Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose

The structure of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose, PDB code: 4zs9 was solved by F.Fredslund, M.Ejby, J.M.Andersen, D.J.Slotboom, M.Abou Hachem, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	57.00 / 1.37
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.540, 90.820, 146.750, 90.00, 90.00, 90.00
R / Rfree (%)	13.2 / 16.7

The structure of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose also contains other interesting chemical elements:

Magnesium

(Mg)

15 atoms

The binding sites of Chlorine atom in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose (pdb code 4zs9). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose, PDB code: 4zs9:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl509 b:25.0 occ:1.00 H A:GLU137 2.4 15.3 1.0 HG3 A:GLU137 2.9 25.6 1.0 HG2 A:LYS368 2.9 27.2 1.0 HA A:ASN136 3.0 14.8 1.0 O A:HOH948 3.1 28.0 1.0 O A:HOH895 3.1 35.1 1.0 N A:GLU137 3.3 12.8 1.0 HE2 A:LYS368 3.4 32.6 1.0 HB2 A:GLU137 3.4 20.3 1.0 CG A:GLU137 3.7 21.3 1.0 CG A:LYS368 3.8 22.7 1.0 CA A:ASN136 3.9 12.3 1.0 CB A:GLU137 3.9 16.9 1.0 HA A:LYS368 3.9 26.1 1.0 HD3 A:LYS368 4.0 30.0 1.0 HB3 A:LYS368 4.1 27.0 1.0 C A:ASN136 4.1 11.8 1.0 CE A:LYS368 4.2 27.1 1.0 CA A:GLU137 4.2 13.0 1.0 CD A:LYS368 4.3 25.0 1.0 CD A:GLU137 4.3 28.9 1.0 CB A:LYS368 4.4 22.5 1.0 O A:LEU135 4.4 13.0 1.0 H A:GLY138 4.4 13.9 1.0 HG2 A:GLU137 4.5 25.6 1.0 HG3 A:LYS368 4.5 27.2 1.0 HE3 A:LYS368 4.6 32.6 1.0 OE1 A:GLU137 4.6 31.4 1.0 CA A:LYS368 4.6 21.8 1.0 OD1 A:ASN136 4.7 15.3 1.0 N A:ASN136 4.8 12.2 1.0 HA A:GLU137 4.9 15.6 1.0 HB3 A:GLU137 4.9 20.3 1.0 CB A:ASN136 4.9 12.8 1.0 O A:HOH1035 4.9 33.5 1.0 CG A:ASN136 4.9 14.6 1.0 OE2 A:GLU137 4.9 32.7 1.0 C A:LEU135 5.0 10.7 1.0

Chlorine binding site 2 out of 4 in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl510 b:33.1 occ:1.00 H A:PHE372 2.3 24.0 1.0 HH22 A:ARG381 2.4 51.3 1.0 HD1 A:PHE372 2.8 27.8 1.0 HA A:TYR371 2.9 23.1 1.0 N A:PHE372 3.1 20.0 1.0 HH12 A:ARG381 3.1 52.6 1.0 HB2 A:PHE372 3.3 24.9 1.0 NH2 A:ARG381 3.3 42.7 1.0 HD1 A:TYR371 3.5 29.6 1.0 CD1 A:PHE372 3.7 23.2 1.0 CA A:TYR371 3.7 19.2 1.0 HH21 A:ARG381 3.8 51.3 1.0 NH1 A:ARG381 3.8 43.9 1.0 CD1 A:TYR371 3.9 24.6 1.0 C A:TYR371 3.9 18.3 1.0 CB A:PHE372 4.0 20.7 1.0 O A:PHE372 4.0 19.8 1.0 CZ A:ARG381 4.0 42.6 1.0 CA A:PHE372 4.0 18.7 1.0 O A:THR370 4.2 23.3 1.0 CG A:PHE372 4.3 21.6 1.0 CG A:TYR371 4.3 22.9 1.0 CE1 A:TYR371 4.4 27.0 1.0 C A:PHE372 4.5 17.7 1.0 HE1 A:TYR371 4.5 32.4 1.0 CB A:TYR371 4.5 20.6 1.0 HH11 A:ARG381 4.6 52.6 1.0 HB2 A:TYR371 4.7 24.8 1.0 CE1 A:PHE372 4.8 24.6 1.0 HE1 A:PHE372 4.8 29.5 1.0 N A:TYR371 4.8 19.8 1.0 HB3 A:PHE372 4.8 24.9 1.0 C A:THR370 4.9 21.7 1.0 HA A:PHE372 4.9 22.4 1.0

Chlorine binding site 3 out of 4 in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl510 b:34.9 occ:1.00 H B:PHE372 2.4 20.4 1.0 HH22 B:ARG381 2.4 40.3 1.0 HD1 B:PHE372 2.8 28.1 1.0 HA B:TYR371 2.9 19.7 1.0 N B:PHE372 3.2 17.0 1.0 NH2 B:ARG381 3.3 33.6 1.0 O B:HOH729 3.3 32.7 1.0 HB2 B:PHE372 3.3 23.8 1.0 HH12 B:ARG381 3.5 40.9 1.0 O B:HOH1074 3.5 31.4 1.0 HD1 B:TYR371 3.6 26.3 1.0 HH21 B:ARG381 3.7 40.3 1.0 CD1 B:PHE372 3.7 23.4 1.0 CA B:TYR371 3.8 16.4 1.0 O B:HOH933 3.9 40.1 1.0 CD1 B:TYR371 4.0 21.9 1.0 C B:TYR371 4.0 16.4 1.0 CB B:PHE372 4.0 19.9 1.0 CA B:PHE372 4.1 17.5 1.0 O B:PHE372 4.2 17.7 1.0 NH1 B:ARG381 4.2 34.1 1.0 O B:THR370 4.2 19.8 1.0 CZ B:ARG381 4.2 33.4 1.0 CG B:PHE372 4.4 21.6 1.0 CG B:TYR371 4.5 18.0 1.0 CE1 B:TYR371 4.5 22.7 1.0 HE1 B:TYR371 4.6 27.2 1.0 CB B:TYR371 4.6 16.7 1.0 C B:PHE372 4.6 16.5 1.0 HE1 B:PHE372 4.7 29.2 1.0 HB2 B:TYR371 4.8 20.0 1.0 CE1 B:PHE372 4.8 24.4 1.0 N B:TYR371 4.8 16.4 1.0 HB3 B:PHE372 4.9 23.8 1.0 C B:THR370 4.9 17.3 1.0 HH11 B:ARG381 5.0 40.9 1.0 HA B:PHE372 5.0 21.0 1.0

Chlorine binding site 4 out of 4 in the Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Raffinose and Panose Binding Protein From Bifidobacterium Animalis Subsp. Lactis Bl-04, Bound with Raffinose within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl511 b:25.0 occ:1.00 H B:GLU137 2.4 14.4 1.0 HG2 B:LYS368 2.9 24.0 1.0 HG3 B:GLU137 2.9 27.8 1.0 HA B:ASN136 3.0 13.8 1.0 N B:GLU137 3.3 12.0 1.0 O B:HOH1004 3.3 29.4 1.0 HB2 B:GLU137 3.4 20.9 1.0 HE2 B:LYS368 3.4 30.1 1.0 O B:HOH857 3.5 34.7 1.0 CG B:GLU137 3.7 23.1 1.0 CG B:LYS368 3.8 20.0 1.0 HD3 B:LYS368 3.8 25.9 1.0 CA B:ASN136 3.8 11.5 1.0 CB B:GLU137 3.9 17.4 1.0 HA B:LYS368 3.9 22.2 1.0 C B:ASN136 4.1 11.9 1.0 CD B:LYS368 4.1 21.6 1.0 CE B:LYS368 4.2 25.1 1.0 HB3 B:LYS368 4.2 23.5 1.0 CA B:GLU137 4.2 13.9 1.0 CD B:GLU137 4.4 29.0 1.0 O B:LEU135 4.4 12.2 1.0 CB B:LYS368 4.4 19.6 1.0 HG3 B:LYS368 4.5 24.0 1.0 H B:GLY138 4.5 13.8 1.0 HG2 B:GLU137 4.5 27.8 1.0 HE3 B:LYS368 4.6 30.1 1.0 CA B:LYS368 4.6 18.5 1.0 N B:ASN136 4.7 10.8 1.0 O B:HOH1092 4.7 31.5 1.0 OD1 B:ASN136 4.8 15.1 1.0 HB3 B:GLU137 4.8 20.9 1.0 OE2 B:GLU137 4.8 31.5 1.0 HA B:GLU137 4.8 16.7 1.0 OE1 B:GLU137 4.9 30.5 1.0 CB B:ASN136 4.9 12.4 1.0 CG B:ASN136 4.9 13.5 1.0 C B:LEU135 4.9 11.8 1.0 O B:LYS368 5.0 22.8 1.0

M.Ejby, F.Fredslund, J.M.Andersen, A.Vujicic Zagar, J.R.Henriksen, T.L.Andersen, B.Svensson, D.J.Slotboom, M.Abou Hachem. An Atp Binding Cassette Transporter Mediates the Uptake of Alpha-(1,6)-Linked Dietary Oligosaccharides in Bifidobacterium and Correlates with Competitive Growth on These Substrates. J. Biol. Chem. V. 291 20220 2016.
ISSN: ESSN 1083-351X
PubMed: 27502277
DOI: 10.1074/JBC.M116.746529