Zinc in PDB 5vnn: Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking)

The structure of Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking), PDB code: 5vnn was solved by W.Ma, J.Goldberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.86 / 2.50
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	148.016, 97.715, 128.967, 90.00, 89.59, 90.00
R / Rfree (%)	21 / 25.1

The binding sites of Zinc atom in the Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking) (pdb code 5vnn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking), PDB code: 5vnn:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking)


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 SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:0.3 occ:1.00 SG A:CYS61 2.3 0.4 1.0 SG A:CYS66 2.3 97.9 1.0 SG A:CYS88 2.3 67.5 1.0 SG A:CYS85 2.3 67.8 1.0 CB A:CYS61 2.8 97.8 1.0 CB A:CYS85 3.0 71.6 1.0 CB A:CYS66 3.1 94.2 1.0 CB A:CYS88 3.8 74.4 1.0 N A:ALA68 4.1 72.2 1.0 N A:ARG67 4.1 78.9 1.0 CA A:CYS61 4.3 87.8 1.0 N A:CYS88 4.3 75.3 1.0 CB A:ALA68 4.4 74.8 1.0 CA A:CYS66 4.5 87.6 1.0 CA A:CYS85 4.5 76.5 1.0 C A:CYS66 4.5 78.2 1.0 CB A:ARG63 4.6 88.7 1.0 CA A:CYS88 4.6 75.7 1.0 CB A:GLN90 4.7 85.8 1.0 CA A:ARG67 4.8 80.1 1.0 C A:CYS61 4.8 85.2 1.0 CA A:ALA68 4.8 71.8 1.0 C A:ARG67 5.0 74.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking)


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 SEC23A/SEC24A/SEC22 Complexed with 4- Phenylbutyric Acid (50MM Soaking) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1102 b:0.9 occ:1.00 SG B:CYS455 2.3 76.0 1.0 SG B:CYS452 2.3 77.0 1.0 SG B:CYS431 2.3 92.5 1.0 SG B:CYS434 2.3 90.3 1.0 CB B:CYS431 3.0 86.9 1.0 CB B:CYS452 3.2 82.0 1.0 CB B:CYS455 3.6 76.0 1.0 CB B:CYS434 3.6 79.7 1.0 N B:CYS455 3.9 75.7 1.0 N B:CYS434 3.9 81.3 1.0 OG1 B:THR436 3.9 69.6 1.0 CA B:CYS455 4.2 74.8 1.0 CA B:CYS434 4.2 75.0 1.0 CB B:THR436 4.2 64.5 1.0 CA B:CYS431 4.4 85.7 1.0 N B:THR436 4.6 68.0 1.0 CA B:CYS452 4.6 81.1 1.0 C B:CYS434 4.7 70.6 1.0 N B:ARG435 4.7 70.8 1.0 C B:CYS455 4.7 75.5 1.0 CB B:LEU454 4.8 72.7 1.0 C B:LEU454 4.8 76.3 1.0 C B:CYS431 4.9 90.3 1.0 CB B:SER433 4.9 89.0 1.0 N B:TYR456 4.9 77.8 1.0 C B:SER433 5.0 84.4 1.0

W.Ma, E.Goldberg, J.Goldberg. Er Retention Is Imposed By Copii Protein Sorting and Attenuated By 4-Phenylbutyrate. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 28594326
DOI: 10.7554/ELIFE.26624