Zinc in PDB 6y50: 5'Domain of Human 17S U2 Snrnp

All present enzymatic activity of 5'Domain of Human 17S U2 Snrnp:
3.6.4.13;

The binding sites of Zinc atom in the 5'Domain of Human 17S U2 Snrnp (pdb code 6y50). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the 5'Domain of Human 17S U2 Snrnp, PDB code: 6y50:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the 5'Domain of Human 17S U2 Snrnp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 5'Domain of Human 17S U2 Snrnp within 5.0Å range: probe atom residue distance (Å) B Occ y:Zn201 b:0.4 occ:1.00 CB y:CYS33 0.8 14.7 1.0 CA y:CYS33 1.5 14.7 1.0 N y:CYS33 1.9 14.7 1.0 C y:CYS33 2.6 14.7 1.0 CB y:CYS75 3.2 10.0 1.0 N y:ASP34 3.2 14.6 1.0 C y:ILE32 3.2 13.8 1.0 CB y:CYS30 3.3 19.1 1.0 CB y:CYS72 3.5 11.6 1.0 O y:CYS33 3.6 14.7 1.0 O y:ILE32 3.9 13.8 1.0 N y:CYS72 4.1 11.6 1.0 CA y:ILE32 4.3 13.8 1.0 CA y:CYS72 4.4 11.6 1.0 N y:ILE32 4.4 13.8 1.0 CA y:CYS30 4.5 19.1 1.0 N y:SER35 4.6 16.8 1.0 CA y:CYS75 4.6 10.0 1.0 CA y:ASP34 4.6 14.6 1.0 CB y:ILE32 4.6 13.8 1.0 C y:CYS30 4.8 19.1 1.0 N y:CYS75 4.9 10.0 1.0 O y:CYS30 4.9 19.1 1.0

Zinc binding site 2 out of 3 in the 5'Domain of Human 17S U2 Snrnp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 5'Domain of Human 17S U2 Snrnp within 5.0Å range: probe atom residue distance (Å) B Occ y:Zn202 b:0.9 occ:1.00 CB y:CYS61 2.0 51.9 1.0 CB y:CYS26 2.3 37.5 1.0 N y:CYS61 2.5 51.9 1.0 CA y:CYS61 2.7 51.9 1.0 CB y:CYS23 2.9 37.4 1.0 CA y:CYS26 3.5 37.5 1.0 N y:CYS23 3.5 37.4 1.0 C y:ILE60 3.7 45.2 1.0 N y:CYS26 3.7 37.5 1.0 CA y:CYS23 3.7 37.4 1.0 CB y:CYS58 3.8 48.4 1.0 C y:CYS61 4.0 51.9 1.0 CB y:ILE60 4.1 45.2 1.0 O y:CYS26 4.1 37.5 1.0 C y:CYS26 4.1 37.5 1.0 CA y:ILE60 4.3 45.2 1.0 CG2 y:ILE60 4.4 45.2 1.0 N y:GLY62 4.5 48.8 1.0 N y:ILE60 4.5 45.2 1.0 O y:ILE60 4.6 45.2 1.0 C y:CYS23 4.6 37.4 1.0 C y:LEU22 4.6 36.0 1.0 O y:CYS23 4.9 37.4 1.0 O y:CYS61 4.9 51.9 1.0 C y:LYS25 4.9 45.6 1.0 CA y:LEU22 5.0 36.0 1.0

Zinc binding site 3 out of 3 in the 5'Domain of Human 17S U2 Snrnp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 5'Domain of Human 17S U2 Snrnp within 5.0Å range: probe atom residue distance (Å) B Occ y:Zn203 b:0.6 occ:1.00 SG y:CYS49 2.1 44.2 1.0 CB y:CYS85 2.6 28.4 1.0 CB y:CYS11 2.8 36.9 1.0 SG y:CYS11 3.0 36.9 1.0 CB y:LYS87 3.5 29.0 1.0 CB y:CYS46 3.8 25.0 1.0 CB y:CYS49 3.9 44.2 1.0 N y:CYS46 4.0 25.0 1.0 CA y:CYS85 4.0 28.4 1.0 CA y:CYS11 4.3 36.9 1.0 C y:CYS85 4.4 28.4 1.0 O y:CYS85 4.4 28.4 1.0 N y:LYS87 4.5 29.0 1.0 CA y:CYS46 4.5 25.0 1.0 CA y:LYS87 4.6 29.0 1.0 N y:ARG12 4.8 35.5 1.0 CA y:CYS49 4.9 44.2 1.0 C y:ILE45 4.9 24.3 1.0 C y:CYS11 4.9 36.9 1.0 N y:CYS11 4.9 36.9 1.0 CA y:ILE45 4.9 24.3 1.0 N y:CYS85 5.0 28.4 1.0 N y:CYS49 5.0 44.2 1.0

Z.Zhang, C.L.Will, K.Bertram, O.Dybkov, K.Hartmuth, D.E.Agafonov, R.Hofele, H.Urlaub, B.Kastner, R.Luhrmann, H.Stark. Molecular Architecture of the Human 17S U2 Snrnp. Nature V. 583 310 2020.
ISSN: ESSN 1476-4687
PubMed: 32494006
DOI: 10.1038/S41586-020-2344-3