Manganese in PDB 6s85: Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.

The structure of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Manganese atom in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. (pdb code 6s85). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna., PDB code: 6s85:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:0.5 occ:1.00 OP1 F:DG76 1.8 0.2 1.0 OD2 A:ASP48 1.8 93.9 1.0 OD1 A:ASP8 1.8 93.9 1.0 NE2 A:HIS10 1.9 93.9 1.0 CG A:ASP48 2.5 93.9 1.0 CD2 A:HIS10 2.6 93.9 1.0 CB A:ASP48 2.8 93.9 1.0 P F:DG76 2.9 0.2 1.0 CG A:ASP8 3.1 93.9 1.0 CE1 A:HIS10 3.1 93.9 1.0 OP2 F:DG76 3.3 0.2 1.0 MN A:MN502 3.3 0.6 1.0 NE2 A:HIS224 3.4 93.9 1.0 OD1 A:ASP48 3.7 93.9 1.0 CG A:HIS10 3.8 93.9 1.0 O3' F:DA75 3.9 1.0 1.0 CB A:ASP8 3.9 93.9 1.0 OD2 A:ASP8 4.0 93.9 1.0 CA A:ASP8 4.0 93.9 1.0 O5' F:DG76 4.0 0.2 1.0 ND1 A:HIS10 4.1 93.9 1.0 CE1 A:HIS224 4.1 93.9 1.0 CA A:ASP48 4.3 93.9 1.0 CD2 A:HIS224 4.4 93.9 1.0 CE1 A:HIS184 4.5 93.9 1.0 NE2 A:HIS184 4.6 93.9 1.0 C A:ASP8 4.7 93.9 1.0 C3' F:DA75 4.8 1.0 1.0 O A:ASP48 4.8 93.9 1.0 OD1 A:ASN83 4.9 93.9 1.0 O A:ASP8 5.0 93.9 1.0

Manganese binding site 2 out of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn502 b:0.6 occ:1.00 OP2 F:DG76 1.9 0.2 1.0 OD2 A:ASP48 1.9 93.9 1.0 OD1 A:ASN83 2.0 93.9 1.0 ND1 A:HIS222 2.4 93.9 1.0 NE2 A:HIS184 2.4 93.9 1.0 CG A:ASP48 2.8 93.9 1.0 CE1 A:HIS222 3.0 93.9 1.0 P F:DG76 3.1 0.2 1.0 CG A:ASN83 3.1 93.9 1.0 OD1 A:ASP48 3.1 93.9 1.0 CE1 A:HIS184 3.2 93.9 1.0 MN A:MN501 3.3 0.5 1.0 CG A:HIS222 3.4 93.9 1.0 CD2 A:HIS184 3.5 93.9 1.0 OP1 F:DG76 3.5 0.2 1.0 ND2 A:ASN83 3.6 93.9 1.0 CA A:HIS222 3.8 93.9 1.0 CB A:HIS222 3.9 93.9 1.0 O3' F:DA75 4.0 1.0 1.0 C3' F:DA75 4.0 1.0 1.0 OD1 A:ASP8 4.0 93.9 1.0 NE2 A:HIS222 4.1 93.9 1.0 CB A:ASP48 4.1 93.9 1.0 CD2 A:HIS222 4.3 93.9 1.0 O5' F:DG76 4.3 0.2 1.0 CB A:ASN83 4.4 93.9 1.0 ND1 A:HIS184 4.4 93.9 1.0 C2' F:DA75 4.4 1.0 1.0 CG A:HIS184 4.5 93.9 1.0 N A:ASN83 4.5 93.9 1.0 O A:HIS222 4.6 93.9 1.0 N A:HIS222 4.7 93.9 1.0 NE2 A:HIS10 4.7 93.9 1.0 C A:HIS222 4.7 93.9 1.0 C5' F:DG76 4.8 0.2 1.0

Manganese binding site 3 out of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn501 b:0.8 occ:1.00 OD2 B:ASP48 1.9 0.5 1.0 NE2 B:HIS224 1.9 0.9 1.0 NE2 B:HIS10 2.1 0.2 1.0 CE1 B:HIS10 2.2 0.2 1.0 CG B:ASP48 2.6 0.5 1.0 CE1 B:HIS224 2.8 0.9 1.0 CD2 B:HIS224 3.0 0.9 1.0 MN B:MN502 3.3 0.7 1.0 CB B:ASP48 3.4 0.5 1.0 CD2 B:HIS10 3.4 0.2 1.0 OD1 B:ASP48 3.5 0.5 1.0 ND1 B:HIS10 3.5 0.2 1.0 ND1 B:HIS224 3.9 0.9 1.0 OD1 B:ASP8 4.0 0.0 1.0 CG B:HIS224 4.0 0.9 1.0 CG B:HIS10 4.1 0.2 1.0 CB B:ASP8 4.2 0.0 1.0 CG B:ASP8 4.3 0.0 1.0 ND1 B:HIS222 4.6 0.1 1.0 OD1 B:ASN83 4.7 0.1 1.0 O B:HIS222 4.8 0.1 1.0 CA B:ASP48 4.8 0.5 1.0 CA B:ASP8 4.9 0.0 1.0

Manganese binding site 4 out of 4 in the Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Cutting State of the E. Coli MRE11-RAD50 (Sbccd) Head Complex Bound to Adp and Dsdna. within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn502 b:0.7 occ:1.00 OD2 B:ASP48 1.8 0.5 1.0 OD1 B:ASN83 1.9 0.1 1.0 ND1 B:HIS222 1.9 0.1 1.0 NE2 B:HIS184 2.5 0.8 1.0 CG B:ASP48 2.5 0.5 1.0 CE1 B:HIS184 2.9 0.8 1.0 CG B:HIS222 2.9 0.1 1.0 OD1 B:ASP48 2.9 0.5 1.0 CE1 B:HIS222 2.9 0.1 1.0 CG B:ASN83 3.0 0.1 1.0 CA B:HIS222 3.1 0.1 1.0 CB B:HIS222 3.2 0.1 1.0 MN B:MN501 3.3 0.8 1.0 ND2 B:ASN83 3.6 0.1 1.0 CD2 B:HIS184 3.8 0.8 1.0 CB B:ASP48 3.8 0.5 1.0 O B:HIS222 4.0 0.1 1.0 CD2 B:HIS222 4.0 0.1 1.0 NE2 B:HIS222 4.0 0.1 1.0 C B:HIS222 4.0 0.1 1.0 ND1 B:HIS184 4.1 0.8 1.0 N B:HIS222 4.1 0.1 1.0 OD1 B:ASP8 4.2 0.0 1.0 NE2 B:HIS224 4.2 0.9 1.0 CB B:ASN83 4.2 0.1 1.0 CG B:HIS184 4.5 0.8 1.0 N B:ASN83 4.6 0.1 1.0 CA B:ASP48 4.7 0.5 1.0 NE2 B:HIS10 4.9 0.2 1.0 N B:ASP48 4.9 0.5 1.0

L.Kashammer, J.H.Saathoff, K.Lammens, F.Gut, J.Bartho, A.Alt, B.Kessler, K.P.Hopfner. Mechanism of Dna End Sensing and Processing By the MRE11-RAD50 Complex. Mol.Cell V. 76 382 2019.
ISSN: ISSN 1097-2765
PubMed: 31492634
DOI: 10.1016/J.MOLCEL.2019.07.035