Zinc in PDB 5kyy: Crystal Structure of SEC23 and TANGO1 PEPTIDE4 Complex

The structure of Crystal Structure of SEC23 and TANGO1 PEPTIDE4 Complex, PDB code: 5kyy 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)	48.01 / 3.40
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	101.386, 139.056, 149.444, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 25.3

The binding sites of Zinc atom in the Crystal Structure of SEC23 and TANGO1 PEPTIDE4 Complex (pdb code 5kyy). 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 SEC23 and TANGO1 PEPTIDE4 Complex, PDB code: 5kyy:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of SEC23 and TANGO1 PEPTIDE4 Complex


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 SEC23 and TANGO1 PEPTIDE4 Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:70.4 occ:1.00 SG A:CYS66 1.8 62.3 1.0 SG A:CYS85 2.0 50.6 1.0 SG A:CYS88 2.1 47.7 1.0 SG A:CYS61 2.7 46.0 1.0 CB A:CYS61 2.9 44.8 1.0 CB A:CYS66 3.0 60.8 1.0 CB A:CYS85 3.0 52.6 1.0 CB A:CYS88 3.5 45.1 1.0 N A:CYS88 4.1 47.2 1.0 N A:ALA68 4.2 74.4 1.0 N A:ARG67 4.2 66.4 1.0 CB A:ALA68 4.3 69.7 1.0 CA A:CYS66 4.3 62.9 1.0 CA A:CYS61 4.4 48.7 1.0 C A:CYS66 4.4 66.1 1.0 CA A:CYS88 4.4 49.8 1.0 CA A:CYS85 4.5 54.2 1.0 CB A:ARG63 4.7 76.0 1.0 CB A:PHE87 4.8 71.2 1.0 CA A:ALA68 4.8 69.0 1.0 C A:CYS61 4.9 53.8 1.0 CB A:GLN90 5.0 89.5 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of SEC23 and TANGO1 PEPTIDE4 Complex


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 SEC23 and TANGO1 PEPTIDE4 Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1101 b:81.6 occ:1.00 SG B:CYS367 2.0 69.4 1.0 SG B:CYS364 2.0 46.9 1.0 CB B:CYS364 2.5 43.9 1.0 SG B:CYS386 2.6 59.9 1.0 SG B:CYS389 2.8 40.3 1.0 CB B:CYS386 2.9 61.8 1.0 CB B:CYS367 3.3 56.1 1.0 N B:CYS367 3.7 61.3 1.0 CA B:CYS364 4.0 46.5 1.0 CA B:CYS367 4.1 57.1 1.0 N B:CYS389 4.1 39.9 1.0 CB B:CYS389 4.2 44.6 1.0 CB B:ALA369 4.2 62.8 1.0 CA B:CYS386 4.4 63.4 1.0 N B:ALA369 4.4 59.3 1.0 N B:LYS368 4.5 67.7 1.0 CB B:PHE388 4.6 61.0 1.0 C B:CYS364 4.6 48.7 1.0 CA B:CYS389 4.7 42.6 1.0 C B:CYS367 4.7 58.9 1.0 CE B:MET375 4.8 80.7 1.0 CD1 B:PHE388 4.9 55.7 1.0 N B:CYS364 4.9 46.6 1.0 C B:ARG366 4.9 73.9 1.0 CA B:ALA369 4.9 57.2 1.0 N B:ARG366 5.0 78.0 1.0 C B:PHE388 5.0 70.7 1.0

W.Ma, J.Goldberg. TANGO1/CTAGE5 Receptor As A Polyvalent Template For Assembly of Large Copii Coats. Proc.Natl.Acad.Sci.Usa V. 113 10061 2016.
ISSN: ESSN 1091-6490
PubMed: 27551091
DOI: 10.1073/PNAS.1605916113