Zinc in PDB 2eh9: Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid)

The structure of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid), PDB code: 2eh9 was solved by H.Niwa, A.Shimada, S.Yokoyama, Riken Structural Genomics/Proteomicsinitiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.89 / 2.00
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	42.887, 42.887, 144.687, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 22.2

The structure of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

The binding sites of Zinc atom in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) (pdb code 2eh9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid), PDB code: 2eh9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:28.1 occ:0.50 OE2 A:GLU56 1.9 27.1 1.0 SG A:CYS53 2.4 29.1 1.0 CD A:GLU56 2.9 26.4 1.0 CB A:CYS53 3.2 27.4 1.0 ZN A:ZN202 3.3 31.3 1.0 OE1 A:GLU56 3.3 28.1 1.0 CA A:CYS53 3.7 27.1 1.0 CL A:CL205 4.1 35.1 1.0 CG A:GLU56 4.3 23.9 1.0 N A:CYS53 4.5 24.6 1.0 CB A:GLU56 4.6 25.8 1.0 C A:CYS53 4.8 27.4 1.0 O A:CYS53 4.9 28.4 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:31.3 occ:1.00 OE1 A:GLU56 1.9 28.1 1.0 CL A:CL205 2.2 35.1 1.0 CL A:CL206 2.3 33.6 1.0 CD A:GLU56 2.9 26.4 1.0 OE2 A:GLU56 3.2 27.1 1.0 ZN A:ZN201 3.3 28.1 0.5 CG A:GLU56 4.3 23.9 1.0 SG A:CYS53 4.6 29.1 1.0 CG1 A:VAL52 4.8 29.5 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:41.4 occ:1.00 OE1 A:GLU29 1.9 40.4 1.0 OE1 A:GLU108 2.0 45.3 1.0 CL A:CL207 2.3 41.8 1.0 CD A:GLU108 2.8 44.9 1.0 CD A:GLU29 2.9 44.0 1.0 OE2 A:GLU108 2.9 46.7 1.0 OE2 A:GLU29 3.3 48.4 1.0 O A:HOH222 4.2 42.3 1.0 CG A:GLU108 4.2 44.8 1.0 CG A:GLU29 4.2 40.3 1.0 CB A:GLU29 4.6 39.0 1.0 CD1 A:PHE26 4.6 32.1 1.0 CA A:PHE26 4.9 30.0 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn204 b:48.8 occ:1.00 OD2 A:ASP21 2.1 50.7 1.0 CG A:ASP21 2.8 43.9 1.0 CB A:ASP21 3.2 38.9 1.0 OD1 A:ASP21 3.9 46.4 1.0 NZ A:LYS17 4.0 60.0 1.0 CD A:LYS17 4.7 55.9 1.0 CA A:ASP21 4.7 35.1 1.0 CE A:LYS17 4.9 58.7 1.0

A.Shimada, H.Niwa, S.Yokoyama. Crystal Structure of the HBAF250B at-Rich Interaction Domain (Arid) To Be Published.