Zinc in PDB 8d9i: Gramp Non-Matching Pfs-with Mg

The binding sites of Zinc atom in the Gramp Non-Matching Pfs-with Mg (pdb code 8d9i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Gramp Non-Matching Pfs-with Mg, PDB code: 8d9i:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Gramp Non-Matching Pfs-with Mg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Gramp Non-Matching Pfs-with Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1701 b:181.8 occ:1.00 CB B:CYS83 1.4 170.7 1.0 SG B:CYS83 2.5 170.7 1.0 CA B:CYS83 2.5 170.7 1.0 SG B:CYS116 2.6 168.2 1.0 C B:CYS83 3.0 170.7 1.0 N B:CYS83 3.1 170.7 1.0 O B:CYS83 3.1 170.7 1.0 SG B:CYS125 3.1 148.8 1.0 SG B:CYS122 3.7 158.6 1.0 CB B:CYS116 3.8 168.2 1.0 O B:ILE115 3.9 173.5 1.0 N B:ASN84 4.0 172.5 1.0 CB B:PHE124 4.0 147.6 1.0 C B:ILE115 4.1 173.5 1.0 N B:CYS125 4.2 148.8 1.0 CD2 B:PHE124 4.2 147.6 1.0 CB B:CYS125 4.3 148.8 1.0 N B:GLY85 4.3 165.8 1.0 N B:CYS116 4.3 168.2 1.0 C B:CYS82 4.4 168.5 1.0 CG B:PHE124 4.5 147.6 1.0 SG B:CYS82 4.6 168.5 1.0 CA B:CYS116 4.7 168.2 1.0 CA B:CYS125 4.8 148.8 1.0 C B:PHE124 4.8 147.6 1.0 CA B:GLY85 4.8 165.8 1.0 CA B:ILE115 4.8 173.5 1.0 C B:ASN84 4.8 172.5 1.0 CA B:PHE124 4.8 147.6 1.0 O B:CYS122 4.9 158.6 1.0 CA B:ASN84 5.0 172.5 1.0

Zinc binding site 2 out of 4 in the Gramp Non-Matching Pfs-with Mg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Gramp Non-Matching Pfs-with Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1702 b:183.3 occ:1.00 SG B:CYS501 1.7 75.9 1.0 SG B:CYS486 3.0 90.3 1.0 SG B:CYS498 3.2 84.2 1.0 CB B:CYS501 3.5 75.9 1.0 O B:CYS486 3.5 90.3 1.0 CB B:CYS486 3.9 90.3 1.0 CB B:CYS496 4.0 95.5 1.0 SG B:CYS496 4.1 95.5 1.0 CA B:CYS501 4.3 75.9 1.0 N B:CYS501 4.3 75.9 1.0 C B:CYS486 4.4 90.3 1.0 NH1 B:ARG475 4.5 59.6 1.0 O B:CYS496 4.7 95.5 1.0 CA B:CYS486 4.8 90.3 1.0 CA B:VAL488 4.9 89.6 1.0 CB B:CYS498 4.9 84.2 1.0 CB B:VAL488 5.0 89.6 1.0 N B:VAL488 5.0 89.6 1.0

Zinc binding site 3 out of 4 in the Gramp Non-Matching Pfs-with Mg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Gramp Non-Matching Pfs-with Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1703 b:184.7 occ:1.00 SG B:CYS750 1.6 80.0 1.0 CB B:CYS745 2.5 108.7 1.0 CD2 B:HIS742 2.7 112.9 1.0 NE2 B:HIS742 2.9 112.9 1.0 SG B:CYS745 3.0 108.7 1.0 CB B:CYS750 3.4 80.0 1.0 CG B:HIS742 3.5 112.9 1.0 O B:HIS742 3.5 112.9 1.0 CE1 B:HIS742 3.6 112.9 1.0 CA B:CYS745 3.8 108.7 1.0 ND1 B:HIS742 3.9 112.9 1.0 CA B:HIS742 4.1 112.9 1.0 C B:CYS745 4.2 108.7 1.0 N B:CYS745 4.2 108.7 1.0 C B:HIS742 4.3 112.9 1.0 SG B:CYS747 4.3 91.9 1.0 CA B:CYS750 4.3 80.0 1.0 CB B:HIS742 4.4 112.9 1.0 O B:CYS745 4.4 108.7 1.0 N B:CYS750 4.5 80.0 1.0 CE B:MET749 4.8 80.0 1.0 N B:THR746 4.9 103.2 1.0

Zinc binding site 4 out of 4 in the Gramp Non-Matching Pfs-with Mg


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Gramp Non-Matching Pfs-with Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1704 b:198.9 occ:1.00 SG B:CYS1417 2.0 56.0 1.0 SG B:CYS1018 2.3 66.7 1.0 SG B:CYS1406 2.4 75.8 1.0 SG B:CYS1414 2.7 61.5 1.0 CB B:CYS1417 3.3 56.0 1.0 CB B:CYS1406 3.4 75.8 1.0 N B:CYS1406 3.8 75.8 1.0 CB B:CYS1414 4.0 61.5 1.0 CB B:CYS1018 4.1 66.7 1.0 CA B:CYS1406 4.3 75.8 1.0 N B:CYS1417 4.3 56.0 1.0 CA B:CYS1417 4.4 56.0 1.0 N B:CYS1414 4.8 61.5 1.0 N B:CYS1018 4.9 66.7 1.0 C B:PRO1405 4.9 79.2 1.0 CA B:CYS1018 4.9 66.7 1.0 CA B:CYS1414 5.0 61.5 1.0

C.Hu, S.P.B.Van Beljouw, K.H.Nam, G.Schuler, F.Ding, Y.Cui, A.Rodriguez-Molina, A.C.Haagsma, M.Valk, M.Pabst, S.J.J.Brouns, A.Ke. Craspase Is A Crispr Rna-Guided, Rna-Activated Protease. Science V. 377 1278 2022.
ISSN: ESSN 1095-9203
PubMed: 36007061
DOI: 10.1126/SCIENCE.ADD5064