Magnesium in PDB 7pds: The Structure of PRIREP1 with Dsdna

The binding sites of Magnesium atom in the The Structure of PRIREP1 with Dsdna (pdb code 7pds). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the The Structure of PRIREP1 with Dsdna, PDB code: 7pds:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the The Structure of PRIREP1 with Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Structure of PRIREP1 with Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:36.5 occ:1.00 S1G A:AGS501 1.8 40.9 1.0 O1B A:AGS501 2.6 40.9 1.0 CB A:SER187 2.8 37.9 1.0 PG A:AGS501 3.1 40.9 1.0 O3B A:AGS501 3.1 40.9 1.0 PB A:AGS501 3.4 40.9 1.0 OE2 A:GLU223 3.6 46.3 1.0 OG A:SER187 3.6 37.9 1.0 O2A A:AGS501 3.7 40.9 1.0 CA A:SER187 4.0 37.9 1.0 N A:SER187 4.1 37.9 1.0 O2G A:AGS501 4.1 40.9 1.0 O3G A:AGS501 4.1 40.9 1.0 O3A A:AGS501 4.2 40.9 1.0 PA A:AGS501 4.3 40.9 1.0 OE2 A:GLU221 4.3 43.1 1.0 CG A:GLU223 4.3 46.3 1.0 CD A:GLU223 4.4 46.3 1.0 O1A A:AGS501 4.4 40.9 1.0 OG1 A:THR267 4.5 43.0 1.0 O2B A:AGS501 4.7 40.9 1.0 NH2 B:ARG281 4.9 35.2 1.0

Magnesium binding site 2 out of 4 in the The Structure of PRIREP1 with Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Structure of PRIREP1 with Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:27.0 occ:1.00 O1B B:AGS501 2.1 32.7 1.0 O3G B:AGS501 2.2 32.7 1.0 CB B:SER187 2.7 27.7 1.0 PB B:AGS501 3.3 32.7 1.0 OG B:SER187 3.4 27.7 1.0 O3A B:AGS501 3.6 32.7 1.0 PG B:AGS501 3.6 32.7 1.0 OE2 B:GLU224 3.8 33.8 1.0 CA B:SER187 3.9 27.7 1.0 N B:SER187 3.9 27.7 1.0 O3B B:AGS501 3.9 32.7 1.0 OG1 B:THR267 4.0 29.2 1.0 OE2 B:GLU223 4.0 34.3 1.0 NH2 C:ARG282 4.2 28.8 1.0 O2G B:AGS501 4.5 32.7 1.0 O2B B:AGS501 4.5 32.7 1.0 CG B:GLU223 4.5 34.3 1.0 O2A B:AGS501 4.6 32.7 1.0 PA B:AGS501 4.6 32.7 1.0 CD B:GLU223 4.7 34.3 1.0 CB B:THR267 4.7 29.2 1.0 S1G B:AGS501 4.9 32.7 1.0 O1A B:AGS501 5.0 32.7 1.0

Magnesium binding site 3 out of 4 in the The Structure of PRIREP1 with Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Structure of PRIREP1 with Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:26.6 occ:1.00 S1G C:AGS501 1.8 33.6 1.0 O3B C:AGS501 2.8 33.6 1.0 PG C:AGS501 2.9 33.6 1.0 O1B C:AGS501 2.9 33.6 1.0 CB C:SER187 3.2 26.8 1.0 PB C:AGS501 3.4 33.6 1.0 NH2 D:ARG282 3.4 32.6 1.0 O3G C:AGS501 3.7 33.6 1.0 O2A C:AGS501 3.7 33.6 1.0 OG C:SER187 3.9 26.8 1.0 O3A C:AGS501 4.1 33.6 1.0 O1A C:AGS501 4.1 33.6 1.0 PA C:AGS501 4.1 33.6 1.0 O2G C:AGS501 4.1 33.6 1.0 OG D:SER241 4.2 32.3 1.0 CA C:SER187 4.4 26.8 1.0 N C:SER187 4.4 26.8 1.0 OG1 C:THR267 4.4 26.8 1.0 OE2 C:GLU221 4.6 26.5 1.0 CZ D:ARG282 4.7 32.6 1.0 O2B C:AGS501 4.8 33.6 1.0 CB D:SER241 5.0 32.3 1.0

Magnesium binding site 4 out of 4 in the The Structure of PRIREP1 with Dsdna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of The Structure of PRIREP1 with Dsdna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg502 b:45.3 occ:1.00 O1B D:AGS501 2.1 49.2 1.0 O2G D:AGS501 2.5 49.2 1.0 CB D:SER187 2.6 39.4 1.0 OG D:SER187 3.1 39.4 1.0 PB D:AGS501 3.5 49.2 1.0 CA D:SER187 3.9 39.4 1.0 OE2 D:GLU224 3.9 46.1 1.0 PG D:AGS501 3.9 49.2 1.0 CG2 D:THR267 4.1 39.5 1.0 N D:SER187 4.1 39.4 1.0 O3A D:AGS501 4.2 49.2 1.0 NH2 E:ARG282 4.2 50.9 1.0 OE1 D:GLU221 4.2 37.0 1.0 O3B D:AGS501 4.2 49.2 1.0 OE2 D:GLU223 4.3 44.2 1.0 O2A D:AGS501 4.5 49.2 1.0 O2B D:AGS501 4.6 49.2 1.0 O1A D:AGS501 4.7 49.2 1.0 PA D:AGS501 4.7 49.2 1.0 CG D:GLU223 4.7 44.2 1.0 CB D:THR267 4.9 39.5 1.0 O3G D:AGS501 4.9 49.2 1.0 CD D:GLU223 5.0 44.2 1.0

C.Qiao, G.Debiasi-Anders, I.Mir-Sanchis. Staphylococcal Self-Loading Helicases Couple the Staircase Mechanism with Inter Domain High Flexibility. Nucleic Acids Res. V. 50 8349 2022.
ISSN: ESSN 1362-4962
PubMed: 35871290
DOI: 10.1093/NAR/GKAC625