Manganese in PDB 8xk0: Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State

The binding sites of Manganese atom in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State (pdb code 8xk0). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State, PDB code: 8xk0:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn801 b:37.4 occ:1.00 OP1 B:DA3 2.1 34.1 1.0 OP3 B:DT1 2.2 20.0 1.0 OXT A:VAL737 2.8 32.1 1.0 O A:VAL737 3.4 32.1 1.0 C A:VAL737 3.5 32.1 1.0 P B:DA3 3.6 34.1 1.0 P B:DT1 3.6 34.1 1.0 OP1 B:DT1 3.8 34.1 1.0 O A:HOH909 4.0 17.2 1.0 C5' B:DA3 4.2 34.1 1.0 O3' B:DG2 4.3 34.1 1.0 O5' B:DT1 4.3 34.1 1.0 O5' B:DA3 4.4 34.1 1.0 C5' B:DT1 4.4 34.1 1.0 NZ A:LYS506 4.4 34.1 1.0 OP2 B:DA3 4.6 34.1 1.0 OP2 B:DT1 4.6 34.1 1.0 OE1 A:GLN450 4.6 34.1 1.0 CE A:LYS506 4.9 34.1 1.0 O A:PHE736 5.0 35.2 1.0 CA A:VAL737 5.0 32.1 1.0

Manganese binding site 2 out of 2 in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Pre-Cleavage State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn802 b:50.6 occ:1.00 OP1 C:DT7 2.0 41.5 1.0 O A:HOH914 2.9 35.7 1.0 OD1 A:ASP527 3.1 35.9 1.0 CB A:ASP713 3.3 34.1 1.0 P C:DT7 3.4 41.5 1.0 OD2 A:ASP527 3.6 35.9 1.0 CG A:ASP527 3.7 35.9 1.0 OD2 A:ASP596 3.9 27.2 1.0 O A:VAL528 3.9 44.3 1.0 O5' C:DT7 4.1 41.5 1.0 CA A:ASP713 4.1 34.1 1.0 OP2 C:DT7 4.2 41.5 1.0 C5' C:DT7 4.2 41.5 1.0 O C:HOH102 4.4 34.2 1.0 CG A:ASP713 4.4 34.1 1.0 O3' C:DC6 4.5 36.2 1.0 OD2 A:ASP713 4.5 34.1 1.0 O A:HOH903 4.7 38.6 1.0 CG A:ASP596 4.9 27.2 1.0 C A:VAL528 4.9 44.3 1.0 NZ A:LYS624 4.9 34.1 1.0 C A:ASP713 5.0 34.1 1.0

X.Tao, H.Ding, S.Wu, F.Wang, H.Xu, J.Li, C.Zhai, S.Li, K.Chen, S.Wu, Y.Liu, L.Ma. Structural and Mechanistic Insights Into A Mesophilic Prokaryotic Argonaute Nucleic Acids Res. V. 52 11895 2024.
ISSN: ESSN 1362-4962
DOI: 10.1093/NAR/GKAE820