Magnesium in PDB 8ezb: Nhej Long-Range Complex with Atp

All present enzymatic activity of Nhej Long-Range Complex with Atp:
2.7.11.1; 6.5.1.1;

The binding sites of Magnesium atom in the Nhej Long-Range Complex with Atp (pdb code 8ezb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Nhej Long-Range Complex with Atp, PDB code: 8ezb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Nhej Long-Range Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Nhej Long-Range Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg4200 b:62.5 occ:1.00 OD1 C:ASN3927 2.1 48.6 1.0 OD2 C:ASP3941 2.1 52.1 1.0 O1B C:ATP4201 2.3 86.5 1.0 O1G C:ATP4201 2.6 86.5 1.0 CG C:ASP3941 3.0 52.1 1.0 CB C:ASP3941 3.2 52.1 1.0 CG C:ASN3927 3.2 48.6 1.0 PG C:ATP4201 3.4 86.5 1.0 O2G C:ATP4201 3.5 86.5 1.0 PB C:ATP4201 3.6 86.5 1.0 NE2 C:HIS3924 3.8 45.2 1.0 CE1 C:HIS3924 3.8 45.2 1.0 O3B C:ATP4201 3.8 86.5 1.0 ND2 C:ASN3927 3.9 48.6 1.0 OD1 C:ASP3941 4.1 52.1 1.0 O C:ASN3926 4.2 49.2 1.0 CB C:ASN3927 4.4 48.6 1.0 O1A C:ATP4201 4.5 86.5 1.0 O3A C:ATP4201 4.5 86.5 1.0 C C:ASN3926 4.5 49.2 1.0 CA C:ASN3927 4.5 48.6 1.0 N C:ASN3927 4.6 48.6 1.0 O2B C:ATP4201 4.7 86.5 1.0 CA C:ASP3941 4.8 52.1 1.0 CB C:ASN3926 4.8 49.2 1.0 O3G C:ATP4201 4.8 86.5 1.0

Magnesium binding site 2 out of 2 in the Nhej Long-Range Complex with Atp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Nhej Long-Range Complex with Atp within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg4200 b:62.5 occ:1.00 OD1 L:ASN3927 2.1 48.6 1.0 OD2 L:ASP3941 2.1 52.1 1.0 O1B L:ATP4201 2.3 86.5 1.0 O1G L:ATP4201 2.6 86.5 1.0 CG L:ASP3941 3.0 52.1 1.0 CB L:ASP3941 3.2 52.1 1.0 CG L:ASN3927 3.2 48.6 1.0 PG L:ATP4201 3.4 86.5 1.0 O2G L:ATP4201 3.5 86.5 1.0 PB L:ATP4201 3.6 86.5 1.0 NE2 L:HIS3924 3.8 45.2 1.0 CE1 L:HIS3924 3.8 45.2 1.0 O3B L:ATP4201 3.8 86.5 1.0 ND2 L:ASN3927 3.9 48.6 1.0 OD1 L:ASP3941 4.1 52.1 1.0 O L:ASN3926 4.2 49.2 1.0 CB L:ASN3927 4.4 48.6 1.0 O1A L:ATP4201 4.5 86.5 1.0 O3A L:ATP4201 4.5 86.5 1.0 C L:ASN3926 4.5 49.2 1.0 CA L:ASN3927 4.5 48.6 1.0 N L:ASN3927 4.6 48.6 1.0 O2B L:ATP4201 4.7 86.5 1.0 CA L:ASP3941 4.8 52.1 1.0 CB L:ASN3926 4.8 49.2 1.0 O3G L:ATP4201 4.8 86.5 1.0

S.Chen, A.Vogt, L.Lee, T.Naila, R.Mckeown, A.E.Tomkinson, S.P.Lees-Miller, Y.He. Cryo-Em Visualization of Dna-Pkcs Structural Intermediates in Nhej. Sci Adv V. 9 G2838 2023.
ISSN: ESSN 2375-2548
PubMed: 37256947
DOI: 10.1126/SCIADV.ADG2838