Zinc in PDB 8j1j: Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna

The structure of Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna (pdb code 8j1j). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna, PDB code: 8j1j:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:162.2 occ:1.00 SG A:CYS375 2.2 77.1 1.0 SG A:CYS394 2.4 109.3 1.0 SG A:CYS372 2.4 89.6 1.0 SG A:CYS391 2.4 120.5 1.0 CB A:CYS391 2.4 113.7 1.0 CB A:CYS372 2.7 81.0 1.0 CA A:CYS391 3.8 109.9 1.0 CB A:CYS375 4.0 82.4 1.0 CB A:CYS394 4.1 104.0 1.0 CA A:CYS372 4.2 77.2 1.0 C A:CYS391 4.2 112.2 1.0 N A:ALA393 4.4 111.8 1.0 N A:CYS394 4.4 108.6 1.0 N A:CYS391 4.5 113.3 1.0 N A:ARG392 4.6 113.2 1.0 CB A:ALA393 4.7 113.1 1.0 O A:CYS391 4.8 114.3 1.0 CB A:TYR396 4.8 98.8 1.0 CA A:CYS394 4.8 105.6 1.0 N A:CYS375 4.8 87.0 1.0 N A:CYS372 4.9 79.3 1.0 CA A:ALA393 5.0 113.1 1.0 C A:CYS372 5.0 85.3 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the ASCAS12F-Yham-SGRNAS3-5V7-Target Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:183.3 occ:1.00 SG B:CYS375 2.3 132.5 1.0 SG B:CYS394 2.3 140.3 1.0 SG B:CYS391 2.3 137.0 1.0 SG B:CYS372 2.3 116.5 1.0 CB B:CYS394 2.5 135.1 1.0 CB B:CYS391 3.2 129.9 1.0 CB B:CYS372 3.2 111.3 1.0 CB B:CYS375 3.4 129.1 1.0 N B:CYS375 3.5 127.5 1.0 N B:CYS394 3.6 134.8 1.0 CA B:CYS394 3.6 134.7 1.0 CB B:ASN377 3.8 107.0 1.0 CA B:CYS375 3.9 128.5 1.0 CB B:GLU374 4.3 128.8 1.0 N B:ASN377 4.4 110.1 1.0 C B:CYS375 4.4 127.5 1.0 C B:GLU374 4.6 127.6 1.0 C B:CYS394 4.6 136.2 1.0 CA B:CYS372 4.6 109.2 1.0 CA B:CYS391 4.6 129.0 1.0 N B:GLY376 4.7 114.3 1.0 N B:GLY395 4.7 132.5 1.0 CA B:ASN377 4.8 106.5 1.0 CA B:GLU374 4.8 128.5 1.0 ND2 B:ASN377 4.8 110.0 1.0 C B:ALA393 4.8 128.1 1.0 N B:GLU374 4.8 126.8 1.0 CG B:ASN377 4.9 109.0 1.0 C B:CYS372 5.0 109.5 1.0 CG B:GLU374 5.0 129.0 1.0

T.Hino, N.S.Omura, R.Nakagawa, T.Togashi, N.S.Takeda, T.Hiramoto, S.Tasaka, H.Hirano, T.Tokuyama, H.Uosaki, H.Ishiguro, H.Yamano, Y.Ozaki, D.Motooka, H.Mori, Y.Kirita, Y.Kise, Y.Itoh, S.Matoba, H.Aburatani, N.Yachie, V.Siksnys, T.Ohmori, A.Hoshino, O.Nureki. Minimal and Most Efficient Genome Editing Cas Enzyme To Be Published.