Zinc in PDB 8wmc: Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator

The binding sites of Zinc atom in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator (pdb code 8wmc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator, PDB code: 8wmc:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator


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 DICAS7-11-Crrna in Complex with Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1701 b:90.0 occ:1.00 SG A:CYS474 2.3 54.7 1.0 SG A:CYS472 2.3 56.9 1.0 SG A:CYS463 2.3 67.7 1.0 SG A:CYS477 2.3 48.2 1.0 CB A:CYS472 3.3 56.9 1.0 CB A:CYS477 3.3 48.2 1.0 CB A:CYS474 3.6 54.7 1.0 CB A:CYS463 3.6 67.7 1.0 N A:CYS477 4.3 48.2 1.0 N A:CYS474 4.3 54.7 1.0 CB A:ALA465 4.4 72.2 1.0 CA A:CYS477 4.4 48.2 1.0 CA A:CYS474 4.5 54.7 1.0 CA A:CYS472 4.6 56.9 1.0 C A:CYS472 4.8 56.9 1.0 CA A:CYS463 4.8 67.7 1.0 N A:MET473 4.9 60.3 1.0

Zinc binding site 2 out of 4 in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator


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 DICAS7-11-Crrna in Complex with Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1702 b:80.8 occ:1.00 ND1 A:HIS703 2.1 68.7 1.0 SG A:CYS708 2.3 62.3 1.0 SG A:CYS711 2.3 59.4 1.0 SG A:CYS706 2.3 75.2 1.0 CE1 A:HIS703 2.8 68.7 1.0 CB A:CYS706 3.2 75.2 1.0 CB A:CYS708 3.3 62.3 1.0 CG A:HIS703 3.3 68.7 1.0 CB A:CYS711 3.4 59.4 1.0 N A:CYS708 3.8 62.3 1.0 CB A:HIS703 3.9 68.7 1.0 NE2 A:HIS703 4.0 68.7 1.0 CA A:HIS703 4.0 68.7 1.0 N A:CYS711 4.0 59.4 1.0 CA A:CYS708 4.1 62.3 1.0 CD2 A:HIS703 4.3 68.7 1.0 CA A:CYS711 4.3 59.4 1.0 CA A:CYS706 4.5 75.2 1.0 C A:CYS706 4.5 75.2 1.0 N A:GLU707 4.5 72.9 1.0 C A:CYS708 4.8 62.3 1.0 CD1 A:LEU701 4.9 64.8 1.0 N A:HIS703 4.9 68.7 1.0 O A:CYS708 4.9 62.3 1.0 O A:CYS706 4.9 75.2 1.0 C A:GLU707 4.9 72.9 1.0 C A:HIS703 5.0 68.7 1.0 O A:HIS703 5.0 68.7 1.0

Zinc binding site 3 out of 4 in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1703 b:82.9 occ:1.00 SG A:CYS1342 2.3 48.2 1.0 SG A:CYS965 2.3 52.0 1.0 SG A:CYS1345 2.3 43.1 1.0 SG A:CYS1312 2.4 53.9 1.0 CB A:CYS1345 3.4 43.1 1.0 CB A:CYS965 3.5 52.0 1.0 CB A:CYS1342 3.7 48.2 1.0 CB A:CYS1312 3.8 53.9 1.0 NH1 A:ARG876 4.1 54.8 1.0 N A:CYS1312 4.1 53.9 1.0 N A:CYS1342 4.1 48.2 1.0 N A:CYS1345 4.3 43.1 1.0 N A:CYS965 4.5 52.0 1.0 CA A:CYS1342 4.5 48.2 1.0 CA A:CYS1345 4.5 43.1 1.0 CA A:CYS1312 4.5 53.9 1.0 CA A:CYS965 4.6 52.0 1.0

Zinc binding site 4 out of 4 in the Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of DICAS7-11-Crrna in Complex with Regulator within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1704 b:122.0 occ:1.00 SG A:CYS126 2.3 74.5 1.0 SG A:CYS123 2.3 77.3 1.0 CB A:CYS86 2.8 82.8 1.0 SG A:CYS115 3.1 85.8 1.0 SG A:CYS86 3.7 82.8 1.0 CB A:CYS126 3.8 74.5 1.0 CA A:CYS86 3.8 82.8 1.0 CB A:CYS123 4.0 77.3 1.0 N A:CYS86 4.0 82.8 1.0 C A:CYS86 4.1 82.8 1.0 O A:CYS86 4.1 82.8 1.0 N A:CYS115 4.1 85.8 1.0 CB A:CYS115 4.2 85.8 1.0 N A:GLY88 4.2 75.9 1.0 CA A:GLY88 4.4 75.9 1.0 NH1 A:ARG131 4.5 75.3 1.0 N A:CYS126 4.6 74.5 1.0 CA A:CYS126 4.7 74.5 1.0 N A:CYS123 4.8 77.3 1.0 CA A:CYS115 4.8 85.8 1.0 N A:PRO87 4.9 78.1 1.0 CA A:PRO114 4.9 83.3 1.0 CA A:CYS123 5.0 77.3 1.0

T.Hong, Q.Luo, H.Ma, X.Wang, X.Li, C.Shen, J.Pang, Y.Wang, Y.Chen, C.Zhang, Z.Su, H.Dong, X.Tang. Structural Basis of Negative Regulation of Crispr-CAS7-11 By Tpr-Chat. Signal Transduct Target Ther V. 9 111 2024.
ISSN: ESSN 2059-3635
PubMed: 38735995
DOI: 10.1038/S41392-024-01821-4