Zinc in PDB 4zdt: Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4

The structure of Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4, PDB code: 4zdt was solved by F.M.Lian, S.Xie, C.M.Qian, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.10 / 2.00
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	85.233, 85.233, 74.835, 90.00, 90.00, 90.00
R / Rfree (%)	21.5 / 23.6

The binding sites of Zinc atom in the Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4 (pdb code 4zdt). 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 Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4, PDB code: 4zdt:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4


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 Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:43.5 occ:1.00 ND1 A:HIS206 2.1 28.8 1.0 SG A:CYS209 2.3 28.9 1.0 SG A:CYS183 2.4 38.9 1.0 SG A:CYS180 2.4 34.2 1.0 CE1 A:HIS206 3.0 30.2 1.0 CG A:HIS206 3.0 27.1 1.0 CB A:CYS180 3.0 39.3 1.0 CB A:CYS183 3.2 41.3 1.0 CB A:CYS209 3.3 26.0 1.0 CB A:HIS206 3.4 25.6 1.0 N A:CYS183 3.9 41.1 1.0 N A:HIS206 4.0 26.0 1.0 CA A:CYS183 4.1 42.0 1.0 NE2 A:HIS206 4.1 30.1 1.0 CD2 A:HIS206 4.2 29.1 1.0 CA A:HIS206 4.3 25.4 1.0 CA A:CYS180 4.5 39.8 1.0 CA A:CYS209 4.7 25.5 1.0 C A:CYS183 4.8 43.5 1.0 C A:LEU182 4.9 40.8 1.0 N A:TYR184 4.9 44.7 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4


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 Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:32.6 occ:1.00 SG A:CYS196 2.3 25.1 1.0 SG A:CYS231 2.3 25.6 1.0 SG A:CYS228 2.4 25.7 1.0 SG A:CYS201 2.4 25.1 1.0 CB A:CYS196 3.1 23.6 1.0 CB A:CYS228 3.2 26.8 1.0 CB A:CYS201 3.2 27.0 1.0 CB A:CYS231 3.3 29.9 1.0 N A:CYS231 3.7 30.8 1.0 CA A:CYS231 4.0 29.8 1.0 CB A:SER203 4.5 27.0 1.0 CA A:CYS196 4.5 23.3 1.0 CA A:CYS228 4.6 27.4 1.0 CA A:CYS201 4.6 26.9 1.0 NH1 A:ARG233 4.7 23.9 1.0 CB A:LYS230 4.8 32.6 1.0 C A:LYS230 4.8 32.1 1.0 C A:CYS231 4.9 30.1 1.0 N A:SER203 4.9 27.1 1.0 N A:ASN202 5.0 26.9 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4


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 Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:41.7 occ:1.00 ND1 C:HIS206 1.9 28.3 1.0 SG C:CYS209 2.3 30.1 1.0 SG C:CYS180 2.4 35.1 1.0 SG C:CYS183 2.4 36.8 1.0 CE1 C:HIS206 2.9 29.6 1.0 CG C:HIS206 3.0 28.9 1.0 CB C:CYS180 3.2 40.3 1.0 CB C:CYS209 3.3 27.2 1.0 CB C:CYS183 3.3 39.8 1.0 CB C:HIS206 3.3 27.5 1.0 N C:CYS183 3.9 39.7 1.0 N C:HIS206 4.0 27.3 1.0 NE2 C:HIS206 4.0 30.6 1.0 CD2 C:HIS206 4.1 30.0 1.0 CA C:CYS183 4.2 40.9 1.0 CA C:HIS206 4.3 27.4 1.0 CA C:CYS180 4.7 40.5 1.0 CA C:CYS209 4.7 26.8 1.0 C C:CYS183 4.9 42.6 1.0 C C:LEU182 4.9 39.0 1.0 CB C:LEU182 5.0 38.2 1.0 N C:TYR184 5.0 44.7 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4


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 Ring Finger Domain of SLX1 in Complex with the C-Terminal Domain of SLX4 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn302 b:36.9 occ:1.00 SG C:CYS196 2.3 26.9 1.0 SG C:CYS231 2.3 27.3 1.0 SG C:CYS201 2.4 29.2 1.0 SG C:CYS228 2.4 27.8 1.0 CB C:CYS196 3.1 29.4 1.0 CB C:CYS228 3.2 27.4 1.0 CB C:CYS201 3.2 31.5 1.0 CB C:CYS231 3.3 29.5 1.0 N C:CYS231 3.7 29.8 1.0 CA C:CYS231 4.1 29.5 1.0 CB C:SER203 4.5 30.8 1.0 CA C:CYS196 4.5 29.3 1.0 NH1 C:ARG233 4.6 27.5 1.0 CA C:CYS228 4.6 27.5 1.0 CA C:CYS201 4.7 31.4 1.0 CB C:LYS230 4.8 31.3 1.0 C C:LYS230 4.8 31.0 1.0 N C:SER203 4.9 29.5 1.0 C C:CYS231 4.9 29.5 1.0

F.M.Lian, S.Xie, C.M.Qian. Crystal Structure and Sumo Binding of SLX1-SLX4 Complex Sci Rep V. 6 19331 2016.
ISSN: ESSN 2045-2322
PubMed: 26787556
DOI: 10.1038/SREP19331