Cadmium in PDB 5tsb: Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+

The structure of Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+, PDB code: 5tsb was solved by T.Zhang, M.Fellner, D.Sui, J.Liu, J.Hu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.49 / 2.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	96.076, 61.596, 54.870, 90.00, 108.74, 90.00
R / Rfree (%)	22.7 / 26.8

The binding sites of Cadmium atom in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+ (pdb code 5tsb). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 4 binding sites of Cadmium where determined in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+, PDB code: 5tsb:
Jump to Cadmium binding site number: 1; 2; 3; 4;

Cadmium binding site 1 out of 4 in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd401 b:55.4 occ:1.00 OE2 A:GLU240 2.6 67.3 1.0 OD1 A:ASN178 2.7 58.6 1.0 OD1 A:ASP208 2.7 52.2 1.0 O A:HOH501 2.8 46.6 1.0 OE1 A:GLU181 2.9 51.0 1.0 CG A:ASN178 3.3 51.3 1.0 CD A:GLU240 3.3 61.2 1.0 CG A:ASP208 3.4 50.2 1.0 CD A:GLU181 3.6 55.5 1.0 OE1 A:GLU211 3.6 44.5 1.0 OE1 A:GLU240 3.7 65.9 1.0 OD2 A:ASP208 3.7 47.5 1.0 ND2 A:ASN178 3.7 54.2 1.0 OE2 A:GLU181 4.1 66.2 1.0 CB A:ASN178 4.2 52.4 1.0 NE2 A:GLN207 4.3 35.4 1.0 CG A:GLU240 4.4 53.9 1.0 CD A:CD402 4.4 43.3 1.0 OG1 A:THR70 4.4 34.9 1.0 CB A:GLU181 4.6 48.1 1.0 CG A:GLU181 4.6 61.1 1.0 CB A:ASP208 4.6 44.9 1.0 CA A:ASN178 4.6 52.9 1.0 CD A:GLU211 4.9 48.3 1.0

Cadmium binding site 2 out of 4 in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd402 b:43.3 occ:1.00 OE2 A:GLU181 2.6 66.2 1.0 NE2 A:HIS177 2.6 42.7 1.0 OE1 A:GLU211 2.6 44.5 1.0 OE2 A:GLU211 2.7 50.7 1.0 OE1 A:GLN207 2.7 40.2 1.0 OE1 A:GLU181 2.8 51.0 1.0 SE A:MSE99 2.8 73.0 1.0 CD A:GLU211 2.9 48.3 1.0 CD A:GLU181 3.0 55.5 1.0 CD2 A:HIS177 3.5 46.2 1.0 CE1 A:HIS177 3.5 65.8 1.0 CD A:GLN207 3.5 45.2 1.0 NE2 A:GLN207 3.6 35.4 1.0 CE A:MSE99 3.7 55.5 1.0 CG A:MSE99 3.9 42.1 1.0 CG A:GLU211 4.3 40.7 1.0 CG A:GLU181 4.4 61.1 1.0 CD A:CD401 4.4 55.4 1.0 ND1 A:HIS177 4.5 77.2 1.0 CG A:HIS177 4.6 56.5 1.0 OD1 A:ASP208 4.8 52.2 1.0 O A:ALA95 4.9 28.1 1.0 CB A:ALA95 4.9 33.0 1.0 CG A:GLN207 5.0 46.8 1.0

Cadmium binding site 3 out of 4 in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd403 b:63.7 occ:1.00 O A:HOH505 2.7 30.5 1.0 O A:HOH504 2.7 36.5 1.0 CA A:GLY122 4.0 44.4 1.0 N A:GLY122 4.5 47.9 1.0 CD A:PRO123 4.8 46.2 1.0

Cadmium binding site 4 out of 4 in the Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of the Zrt-/Irt-Like Protein From Bordetella Bronchiseptica with Bound CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd404 b:0.2 occ:1.00 OD2 A:ASP144 2.7 93.4 1.0 OD1 A:ASP144 2.7 87.3 1.0 O A:HOH502 2.8 46.5 1.0 NE2 A:HIS275 2.8 91.8 1.0 CD2 A:HIS275 2.9 87.7 1.0 CG A:ASP144 3.0 84.9 1.0 CE1 A:HIS275 4.1 86.6 1.0 CG A:HIS275 4.2 79.0 1.0 CB A:ASP144 4.4 80.9 1.0 ND1 A:HIS275 4.8 80.3 1.0

T.Zhang, J.Liu, M.Fellner, C.Zhang, D.Sui, J.Hu. Crystal Structures of A Zip Zinc Transporter Reveal A Binuclear Metal Center in the Transport Pathway. Sci Adv V. 3 00344 2017.
ISSN: ESSN 2375-2548
PubMed: 28875161
DOI: 10.1126/SCIADV.1700344