Zinc in PDB 4gsk: Crystal Structure of An ATG7-ATG10 Crosslinked Complex

The structure of Crystal Structure of An ATG7-ATG10 Crosslinked Complex, PDB code: 4gsk was solved by S.E.Kaiser, K.Mao, A.M.Taherbhoy, S.Yu, J.L.Olszewski, D.M.Duda, I.Kurinov, A.Deng, T.D.Fenn, D.J.Klionsky, B.A.Schulman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.57 / 2.90
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	120.556, 146.186, 108.442, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 28.6

The binding sites of Zinc atom in the Crystal Structure of An ATG7-ATG10 Crosslinked Complex (pdb code 4gsk). 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 An ATG7-ATG10 Crosslinked Complex, PDB code: 4gsk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of An ATG7-ATG10 Crosslinked 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 An ATG7-ATG10 Crosslinked Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:88.1 occ:1.00 SG A:CYS569 2.7 86.4 1.0 SG A:CYS485 2.8 78.5 1.0 CB A:CYS572 2.8 91.4 1.0 SG A:CYS488 2.8 83.2 1.0 SG A:CYS572 2.9 91.7 1.0 CB A:CYS488 3.1 83.0 1.0 CB A:CYS569 3.3 86.7 1.0 CA A:CYS488 3.4 83.0 1.0 N A:CYS485 3.4 78.3 1.0 N A:CYS488 3.6 81.6 1.0 CB A:CYS485 3.7 78.3 1.0 CA A:CYS572 4.0 91.3 1.0 CA A:CYS485 4.0 78.2 1.0 N A:CYS572 4.1 90.0 1.0 C A:PHE487 4.3 80.3 1.0 C A:GLY484 4.4 78.4 1.0 CA A:GLY484 4.5 79.5 1.0 C A:CYS485 4.6 77.8 1.0 C A:ALA571 4.7 88.8 1.0 O A:CYS485 4.8 77.5 1.0 CA A:CYS569 4.8 87.1 1.0 C A:CYS488 4.8 84.4 1.0 O A:PHE487 4.8 80.5 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of An ATG7-ATG10 Crosslinked 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 An ATG7-ATG10 Crosslinked Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn701 b:92.7 occ:1.00 SG B:CYS485 2.7 83.9 1.0 SG B:CYS569 2.7 92.2 1.0 SG B:CYS488 2.8 89.5 1.0 SG B:CYS572 2.9 89.8 1.0 CB B:CYS572 3.0 89.7 1.0 CB B:CYS569 3.3 91.9 1.0 N B:CYS485 3.5 86.3 1.0 N B:CYS572 3.5 88.7 1.0 CB B:CYS485 3.8 84.3 1.0 CB B:CYS488 3.8 89.5 1.0 N B:CYS488 3.9 88.0 1.0 CA B:CYS488 3.9 89.5 1.0 CA B:CYS572 3.9 89.5 1.0 CA B:CYS485 4.1 84.7 1.0 CB B:ALA571 4.3 87.9 1.0 C B:GLY484 4.6 87.5 1.0 C B:PHE487 4.6 86.5 1.0 C B:CYS485 4.6 83.6 1.0 CA B:GLY484 4.6 88.6 1.0 C B:ALA571 4.6 88.0 1.0 O B:CYS485 4.7 83.3 1.0 CA B:CYS569 4.7 91.3 1.0 O B:TYR566 4.8 92.1 1.0 CA B:ALA571 4.8 87.8 1.0 N B:TYR566 4.8 91.2 1.0 N B:ALA571 4.9 87.9 1.0 C B:CYS572 5.0 90.1 1.0

S.E.Kaiser, K.Mao, A.M.Taherbhoy, S.Yu, J.L.Olszewski, D.M.Duda, I.Kurinov, A.Deng, T.D.Fenn, D.J.Klionsky, B.A.Schulman. Noncanonical E2 Recruitment By the Autophagy E1 Revealed By ATG7-ATG3 and ATG7-ATG10 Structures. Nat.Struct.Mol.Biol. V. 19 1242 2012.
ISSN: ISSN 1545-9993
PubMed: 23142976
DOI: 10.1038/NSMB.2415