Zinc in PDB 3vh1: Crystal Structure of Saccharomyces Cerevisiae ATG7 (1-595)

The structure of Crystal Structure of Saccharomyces Cerevisiae ATG7 (1-595), PDB code: 3vh1 was solved by N.N.Noda, K.Satoo, F.Inagaki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.00
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	88.327, 88.327, 264.890, 90.00, 90.00, 120.00
R / Rfree (%)	21.6 / 25

The binding sites of Zinc atom in the Crystal Structure of Saccharomyces Cerevisiae ATG7 (1-595) (pdb code 3vh1). 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 Saccharomyces Cerevisiae ATG7 (1-595), PDB code: 3vh1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Saccharomyces Cerevisiae ATG7 (1-595)


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 Saccharomyces Cerevisiae ATG7 (1-595) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:0.0 occ:1.00 SG A:CYS488 2.1 85.0 1.0 SG A:CYS572 2.1 86.3 1.0 SG A:CYS569 2.3 93.5 1.0 SG A:CYS485 2.5 80.6 1.0 CB A:CYS569 2.9 91.9 1.0 N A:CYS488 3.3 88.4 1.0 CB A:CYS488 3.3 88.4 1.0 CA A:CYS488 3.3 89.8 1.0 CB A:CYS572 3.5 87.0 1.0 CB A:CYS485 3.6 81.1 1.0 C A:PHE487 3.8 87.1 1.0 N A:CYS572 3.9 88.6 1.0 N A:CYS485 3.9 83.1 1.0 CA A:CYS485 4.2 82.1 1.0 CA A:CYS572 4.2 89.0 1.0 O A:PHE487 4.3 87.1 1.0 CA A:CYS569 4.4 90.3 1.0 N A:PHE487 4.5 85.7 1.0 C A:CYS485 4.5 82.5 1.0 CA A:PHE487 4.5 86.2 1.0 CB A:PHE487 4.7 85.6 1.0 O A:CYS485 4.7 81.8 1.0 C A:CYS572 4.8 90.3 1.0 C A:CYS488 4.8 91.4 1.0 CB A:ALA571 4.9 86.2 1.0 O A:TYR566 4.9 93.6 1.0 C A:ALA571 5.0 87.8 1.0 N A:SER573 5.0 91.1 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Saccharomyces Cerevisiae ATG7 (1-595)


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 Saccharomyces Cerevisiae ATG7 (1-595) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn702 b:0.7 occ:1.00 OD1 A:ASP193 2.5 77.5 1.0 SG A:CYS195 2.6 81.0 1.0 CG A:ASP193 3.4 76.6 1.0 CB A:CYS195 3.4 77.9 1.0 OD2 A:ASP193 3.5 78.6 1.0 N A:CYS195 3.6 77.0 1.0 CG A:LYS194 4.0 77.0 1.0 CA A:CYS195 4.1 77.3 1.0 N A:LYS194 4.7 74.8 1.0 C A:LYS194 4.8 76.4 1.0 CB A:ASP193 4.8 74.9 1.0 CD A:LYS194 4.8 77.2 1.0 C A:ASP193 4.8 74.0 1.0 C A:CYS195 4.9 76.2 1.0 N A:ILE196 5.0 74.8 1.0

N.N.Noda, K.Satoo, Y.Fujioka, H.Kumeta, K.Ogura, H.Nakatogawa, Y.Ohsumi, F.Inagaki. Structural Basis of ATG8 Activation By A Homodimeric E1, ATG7. Mol.Cell V. 44 462 2011.
ISSN: ISSN 1097-2765
PubMed: 22055191
DOI: 10.1016/J.MOLCEL.2011.08.035