Zinc in PDB 6o7i: Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System

The binding sites of Zinc atom in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System (pdb code 6o7i). 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 Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System, PDB code: 6o7i:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System


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 Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:39.5 occ:1.00 SG A:CYS413 2.5 33.0 1.0 SG A:CYS392 2.5 25.6 1.0 SG A:CYS389 2.5 27.0 1.0 SG A:CYS416 2.5 32.7 1.0 CB A:CYS389 3.3 27.0 1.0 CB A:CYS413 3.5 33.0 1.0 O A:CYS392 3.8 25.6 1.0 CB A:CYS416 3.8 32.7 1.0 N A:CYS392 3.8 25.6 1.0 CB A:CYS392 3.9 25.6 1.0 N A:CYS413 4.0 33.0 1.0 CA A:CYS392 4.3 25.6 1.0 CA A:CYS413 4.3 33.0 1.0 CG A:ARG394 4.4 26.4 1.0 C A:CYS392 4.4 25.6 1.0 CB A:VAL391 4.5 26.6 1.0 O A:CYS413 4.8 33.0 1.0 CA A:CYS389 4.8 27.0 1.0 N A:CYS416 4.8 32.7 1.0 CA A:CYS416 4.9 32.7 1.0 OH A:TYR258 4.9 25.5 1.0 C A:VAL391 4.9 26.6 1.0 C A:CYS413 4.9 33.0 1.0 N A:VAL391 4.9 26.6 1.0 CB A:ARG394 5.0 26.4 1.0

Zinc binding site 2 out of 4 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System


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 Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn301 b:36.4 occ:1.00 SG C:CYS113 2.4 26.8 1.0 SG C:CYS122 2.4 17.4 1.0 SG C:CYS125 2.4 22.0 1.0 NE2 C:HIS111 2.7 38.8 1.0 CB C:CYS125 2.9 22.0 1.0 CB C:CYS122 3.0 17.4 1.0 CD2 C:HIS111 3.3 38.8 1.0 N C:CYS125 3.4 22.0 1.0 CB C:CYS113 3.7 26.8 1.0 CA C:CYS125 3.8 22.0 1.0 CE1 C:HIS111 3.8 38.8 1.0 N C:CYS113 4.2 26.8 1.0 CA C:CYS122 4.4 17.4 1.0 CB C:VAL124 4.4 23.8 1.0 O C:CYS122 4.5 17.4 1.0 CA C:CYS113 4.5 26.8 1.0 CG C:HIS111 4.5 38.8 1.0 C C:VAL124 4.5 23.8 1.0 C C:CYS122 4.5 17.4 1.0 N C:VAL124 4.7 23.8 1.0 ND1 C:HIS111 4.7 38.8 1.0 CA C:VAL124 4.8 23.8 1.0 C C:CYS125 4.9 22.0 1.0

Zinc binding site 3 out of 4 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System


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 Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn301 b:47.8 occ:1.00 NE2 D:HIS111 2.1 31.2 1.0 SG D:CYS122 2.4 23.7 1.0 SG D:CYS113 2.4 29.1 1.0 SG D:CYS125 2.4 23.5 1.0 CE1 D:HIS111 3.0 31.2 1.0 CD2 D:HIS111 3.1 31.2 1.0 CB D:CYS122 3.2 23.7 1.0 CB D:CYS113 3.4 29.1 1.0 CB D:CYS125 3.4 23.5 1.0 N D:CYS113 3.6 29.1 1.0 CA D:CYS113 4.0 29.1 1.0 ND1 D:HIS111 4.0 31.2 1.0 CG D:HIS111 4.1 31.2 1.0 N D:CYS125 4.2 23.5 1.0 CA D:CYS125 4.4 23.5 1.0 C D:VAL112 4.5 26.0 1.0 CA D:CYS122 4.6 23.7 1.0 CB D:VAL124 4.7 24.7 1.0 CA D:VAL112 4.8 26.0 1.0

Zinc binding site 4 out of 4 in the Cryo-Em Structure of Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System


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 Csm-Crrna-Target Rna Ternary Bigger Complex in Complex with CA4 in Type III-A Crispr-Cas System within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn301 b:98.0 occ:1.00 NE2 K:HIS111 2.1 53.7 1.0 SG K:CYS122 2.4 52.6 1.0 SG K:CYS125 2.5 44.0 1.0 SG K:CYS113 2.5 56.3 1.0 CE1 K:HIS111 2.7 53.7 1.0 CB K:CYS125 3.0 44.0 1.0 CD2 K:HIS111 3.2 53.7 1.0 CB K:CYS122 3.4 52.6 1.0 N K:CYS125 3.5 44.0 1.0 CB K:CYS113 3.5 56.3 1.0 N K:CYS113 3.6 56.3 1.0 ND1 K:HIS111 3.8 53.7 1.0 CA K:CYS125 3.9 44.0 1.0 CA K:CYS113 4.1 56.3 1.0 CG K:HIS111 4.1 53.7 1.0 CB K:VAL124 4.3 47.3 1.0 C K:VAL112 4.5 53.5 1.0 C K:VAL124 4.6 47.3 1.0 CG1 K:VAL124 4.7 47.3 1.0 CA K:VAL112 4.8 53.5 1.0 CA K:VAL124 4.8 47.3 1.0 CA K:CYS122 4.9 52.6 1.0 N K:VAL124 4.9 47.3 1.0 C K:CYS125 5.0 44.0 1.0

N.Jia, R.Jones, G.Sukenick, D.J.Patel. Second Messenger CA4FORMATION Within the Composite CSM1 Palm Pocket of Type III-A Crispr-Cas Csm Complex and Its Release Path. Mol.Cell V. 75 933 2019.
ISSN: ISSN 1097-2765
PubMed: 31326272
DOI: 10.1016/J.MOLCEL.2019.06.013