Manganese in PDB 8xk4: Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Target-Released 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 Target-Released State (pdb code 8xk4). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 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 Target-Released State, PDB code: 8xk4:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Target-Released 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 Target-Released State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn801 b:73.1 occ:1.00 OP3 C:DT7 2.9 20.0 1.0 OD2 A:ASP596 3.2 39.9 1.0 OD1 A:ASP527 3.5 44.0 1.0 O A:VAL528 3.6 52.7 1.0 OP2 C:DT7 3.9 75.6 1.0 O A:ASP596 3.9 44.3 1.0 P C:DT7 4.0 75.6 1.0 CG A:ASP596 4.0 39.9 1.0 MN C:MN101 4.3 76.5 1.0 CG A:ASP527 4.3 44.0 1.0 C3' B:DC102 4.3 85.5 1.0 CB A:ASP596 4.4 39.9 1.0 OD2 A:ASP527 4.4 44.0 1.0 C A:ASP596 4.5 44.3 1.0 O3' B:DC102 4.6 85.5 1.0 C5' C:DT7 4.6 75.6 1.0 N A:VAL528 4.6 52.7 1.0 OP2 B:DC102 4.7 85.5 1.0 C A:VAL528 4.8 52.7 1.0 C2' B:DC102 4.8 85.5 1.0 O5' C:DT7 4.8 75.6 1.0 NH1 A:ARG595 4.9 44.3 1.0

Manganese binding site 2 out of 3 in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Target-Released 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 Target-Released State within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn101 b:51.0 occ:1.00 O A:VAL737 1.8 40.0 1.0 OP1 B:DT1 1.8 46.6 1.0 OP1 B:DA3 2.1 44.3 1.0 C A:VAL737 2.9 40.0 1.0 P B:DT1 3.1 46.6 1.0 P B:DA3 3.5 44.3 1.0 OP3 B:DT1 3.6 20.0 1.0 OP2 B:DT1 4.0 46.6 1.0 NZ A:LYS506 4.1 44.3 1.0 OE1 A:GLN450 4.1 44.3 1.0 O3' B:DG2 4.1 44.3 1.0 CA A:VAL737 4.1 40.0 1.0 O5' B:DT1 4.2 46.6 1.0 C5' B:DT1 4.4 46.6 1.0 CG2 A:VAL737 4.4 40.0 1.0 OP2 B:DA3 4.5 44.3 1.0 O5' B:DA3 4.5 44.3 1.0 C5' B:DA3 4.5 44.3 1.0 CB A:VAL737 4.8 40.0 1.0 CE A:LYS506 4.8 44.3 1.0 CD A:GLN450 5.0 44.3 1.0

Manganese binding site 3 out of 3 in the Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Target-Released State


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Structure of the Argonaute Protein From Kurthia Massiliensis in Complex with Guide Dna and 19-Mer Target Dna in Target-Released State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn101 b:76.5 occ:1.00 OP2 C:DT7 1.7 75.6 1.0 OD1 A:ASP713 1.9 44.3 1.0 CG A:ASP713 3.0 44.3 1.0 OD1 A:ASP527 3.1 44.0 1.0 P C:DT7 3.3 75.6 1.0 OD2 A:ASP527 3.7 44.0 1.0 CG A:ASP527 3.7 44.0 1.0 CB A:ASP713 3.7 44.3 1.0 OD2 A:ASP713 3.9 44.3 1.0 OP3 C:DT7 4.1 20.0 1.0 OP1 C:DT7 4.1 75.6 1.0 O5' C:DT7 4.1 75.6 1.0 OD2 A:ASP596 4.2 39.9 1.0 CA A:ASP713 4.2 44.3 1.0 MN A:MN801 4.3 73.1 1.0 C5' C:DT7 4.4 75.6 1.0 O A:VAL528 4.4 52.7 1.0 NZ A:LYS624 4.7 44.3 1.0 OP2 C:DA8 4.8 66.0 1.0 O A:ASP713 4.9 44.3 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