Zinc in PDB 8d97: Apo Gramp

The binding sites of Zinc atom in the Apo Gramp (pdb code 8d97). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Apo Gramp, PDB code: 8d97:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Apo Gramp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Apo Gramp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1701 b:120.0 occ:1.00 SG A:CYS116 2.3 121.9 1.0 SG A:CYS122 2.3 100.2 1.0 SG A:CYS83 2.3 112.5 1.0 SG A:CYS125 2.4 97.3 1.0 CB A:CYS83 2.7 112.5 1.0 CB A:CYS122 3.3 100.2 1.0 CB A:CYS116 3.5 121.9 1.0 N A:CYS122 3.8 100.2 1.0 N A:CYS83 3.8 112.5 1.0 CA A:CYS83 3.9 112.5 1.0 CB A:CYS125 4.0 97.3 1.0 CA A:CYS122 4.1 100.2 1.0 O A:CYS122 4.4 100.2 1.0 N A:CYS125 4.5 97.3 1.0 C A:CYS122 4.6 100.2 1.0 C A:CYS83 4.8 112.5 1.0 CA A:CYS125 4.8 97.3 1.0 CA A:CYS116 4.9 121.9 1.0 C A:ALA121 4.9 110.4 1.0

Zinc binding site 2 out of 4 in the Apo Gramp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Apo Gramp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1702 b:110.1 occ:1.00 SG A:CYS498 2.3 71.6 1.0 SG A:CYS486 2.4 79.6 1.0 SG A:CYS501 2.4 70.9 1.0 SG A:CYS496 2.6 73.1 1.0 CB A:CYS501 3.6 70.9 1.0 O A:CYS486 3.7 79.6 1.0 CB A:CYS486 3.9 79.6 1.0 N A:CYS486 4.0 79.6 1.0 CB A:CYS498 4.0 71.6 1.0 CB A:CYS496 4.1 73.1 1.0 CA A:CYS486 4.3 79.6 1.0 C A:CYS486 4.3 79.6 1.0 N A:CYS501 4.7 70.9 1.0 CA A:CYS501 4.7 70.9 1.0 O A:CYS498 4.9 71.6 1.0 N A:CYS498 4.9 71.6 1.0 CA A:CYS498 5.0 71.6 1.0

Zinc binding site 3 out of 4 in the Apo Gramp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Apo Gramp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1703 b:145.2 occ:1.00 O A:CYS745 2.1 140.6 1.0 SG A:CYS745 2.4 140.6 1.0 C A:CYS745 2.5 140.6 1.0 SG A:CYS747 2.5 121.8 1.0 SG A:CYS750 2.5 105.5 1.0 CB A:CYS745 2.6 140.6 1.0 ND1 A:HIS742 2.7 142.8 1.0 CA A:CYS745 3.1 140.6 1.0 N A:THR746 3.2 133.2 1.0 N A:CYS747 3.2 121.8 1.0 CB A:CYS747 3.3 121.8 1.0 CB A:CYS750 3.4 105.5 1.0 CE1 A:HIS742 3.5 142.8 1.0 CA A:THR746 3.7 133.2 1.0 CG A:HIS742 3.8 142.8 1.0 C A:THR746 3.8 133.2 1.0 CA A:CYS747 3.9 121.8 1.0 N A:CYS745 4.0 140.6 1.0 CB A:HIS742 4.1 142.8 1.0 N A:CYS750 4.4 105.5 1.0 CA A:CYS750 4.5 105.5 1.0 NE2 A:HIS742 4.7 142.8 1.0 CA A:HIS742 4.8 142.8 1.0 O A:THR746 4.8 133.2 1.0 CD2 A:HIS742 4.8 142.8 1.0 C A:CYS747 4.9 121.8 1.0

Zinc binding site 4 out of 4 in the Apo Gramp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Apo Gramp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1704 b:131.7 occ:1.00 SG A:CYS1013 2.3 118.4 1.0 SG A:CYS1401 2.3 125.7 1.0 SG A:CYS1412 2.3 102.0 1.0 SG A:CYS1409 2.4 106.1 1.0 CB A:CYS1412 3.1 102.0 1.0 CB A:CYS1401 3.2 125.7 1.0 CB A:CYS1013 3.5 118.4 1.0 CB A:CYS1409 3.9 106.1 1.0 N A:CYS1401 3.9 125.7 1.0 CA A:CYS1401 4.2 125.7 1.0 N A:CYS1409 4.2 106.1 1.0 NH1 A:ARG930 4.3 117.0 1.0 CA A:CYS1412 4.4 102.0 1.0 CA A:CYS1013 4.5 118.4 1.0 N A:CYS1412 4.5 102.0 1.0 N A:CYS1013 4.5 118.4 1.0 CA A:CYS1409 4.6 106.1 1.0 O A:CYS1013 4.8 118.4 1.0 O A:CYS1409 4.9 106.1 1.0 C A:CYS1013 5.0 118.4 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