Cadmium in PDB 4q2m: Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine

The structure of Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine, PDB code: 4q2m was solved by X.C.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.08 / 1.49
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	34.970, 61.134, 70.391, 90.00, 90.00, 90.00
R / Rfree (%)	21.5 / 24.7

The structure of Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine also contains other interesting chemical elements:

Iodine

(I)

18 atoms

The binding sites of Cadmium atom in the Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine (pdb code 4q2m). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine, PDB code: 4q2m:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in the Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd3003 b:37.1 occ:1.00 ND1 A:HIS44 2.4 34.7 1.0 I A:IOD3015 2.7 73.0 0.5 I A:IOD3016 2.8 68.8 0.5 CE1 A:HIS44 3.2 33.5 1.0 CG A:HIS44 3.4 33.2 1.0 CB A:HIS44 3.8 35.4 1.0 CB A:ALA20 4.3 36.3 1.0 CA A:HIS44 4.3 33.8 1.0 NE2 A:HIS44 4.3 33.0 1.0 CD2 A:HIS44 4.5 34.0 1.0 O A:HOH4019 4.7 55.9 1.0 N A:ALA20 4.8 32.9 1.0 N A:HIS44 4.8 38.3 1.0

Cadmium binding site 2 out of 2 in the Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structure of the E. Coli Yajr Transporter Yam Domain Combined Iodine within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd3004 b:35.6 occ:0.13 O A:GLU43 2.5 41.6 1.0 O A:HOH4001 2.8 49.6 1.0 O A:ACY3001 2.8 55.8 1.0 I A:IOD3010 2.9 0.7 0.2 OXT A:ACY3001 3.0 61.7 1.0 C A:ACY3001 3.1 60.9 1.0 C A:GLU43 3.5 40.3 1.0 CA A:GLU43 4.1 41.1 0.5 CA A:GLU43 4.1 41.4 0.6 CB A:GLU43 4.3 43.2 0.5 CH3 A:ACY3001 4.5 60.9 1.0 CB A:HIS44 4.5 35.4 1.0 N A:HIS44 4.6 38.3 1.0 CB A:GLU43 4.7 44.2 0.6 O A:HOH4035 4.7 43.1 1.0 O A:HOH4034 4.7 54.5 1.0 OG A:SER45 4.8 36.9 0.6 O A:HIS44 4.8 35.2 1.0 O A:HOH4033 4.9 54.2 1.0 CA A:HIS44 4.9 33.8 1.0 O A:HOH4002 4.9 36.7 1.0 CG A:GLU43 5.0 44.1 0.6 C A:HIS44 5.0 34.2 1.0

D.Jiang, Y.Zhao, J.Fan, X.Liu, Y.Wu, W.Feng, X.C.Zhang. Atomic Resolution Structure of the E. Coli Yajr Transporter Yam Domain Biochem.Biophys.Res.Commun. 2014.
ISSN: ESSN 1090-2104
PubMed: 24952155
DOI: 10.1016/J.BBRC.2014.06.053