Magnesium in PDB 7w0e: DMDICER2-Loqspd-Dsrna Active-Dicing Status

All present enzymatic activity of DMDICER2-Loqspd-Dsrna Active-Dicing Status:
3.1.21.1; 3.1.26.3; 3.6.1.3;

The binding sites of Magnesium atom in the DMDICER2-Loqspd-Dsrna Active-Dicing Status (pdb code 7w0e). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the DMDICER2-Loqspd-Dsrna Active-Dicing Status, PDB code: 7w0e:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the DMDICER2-Loqspd-Dsrna Active-Dicing Status


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of DMDICER2-Loqspd-Dsrna Active-Dicing Status within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1801 b:30.6 occ:1.00 OP1 D:G32 2.1 43.9 1.0 OD1 A:ASP1368 2.1 63.0 1.0 CG A:ASP1368 3.1 63.0 1.0 OD2 A:ASP1368 3.4 63.0 1.0 OE2 A:GLU1213 3.4 54.0 1.0 P D:G32 3.5 43.9 1.0 O5' D:G32 4.1 43.9 1.0 OE2 A:GLU1371 4.1 62.1 1.0 C5' D:G32 4.1 43.9 1.0 CD A:GLU1213 4.2 54.0 1.0 O3' D:A31 4.4 43.6 1.0 CB A:ASP1368 4.5 63.0 1.0 OD1 A:ASN1250 4.5 72.8 1.0 OP2 D:G32 4.5 43.9 1.0 O A:LYS1364 4.7 76.7 1.0 CA A:ASP1368 4.7 63.0 1.0 OP2 D:U33 4.8 47.0 1.0 ND2 A:ASN1250 4.8 72.8 1.0 OE1 A:GLU1213 4.8 54.0 1.0 CG A:GLU1213 4.8 54.0 1.0 N A:ASP1368 4.9 63.0 1.0

Magnesium binding site 2 out of 3 in the DMDICER2-Loqspd-Dsrna Active-Dicing Status


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of DMDICER2-Loqspd-Dsrna Active-Dicing Status within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1802 b:38.5 occ:1.00 OD1 A:ASP1614 2.3 65.0 1.0 OP1 C:C22 2.4 45.4 1.0 CG A:ASP1614 2.9 65.0 1.0 OD2 A:ASP1614 3.1 65.0 1.0 P C:C22 3.3 45.4 1.0 OP2 C:C22 3.3 45.4 1.0 OE2 A:GLU1617 3.4 69.2 1.0 OE1 A:GLU1617 3.4 69.2 1.0 CD A:GLU1617 3.7 69.2 1.0 OE1 A:GLU1472 4.1 68.2 1.0 O5' C:C22 4.2 45.4 1.0 C5' C:C22 4.2 45.4 1.0 CB A:ASP1614 4.2 65.0 1.0 ND2 A:ASN1509 4.4 60.3 1.0 CD A:GLU1472 4.5 68.2 1.0 O3' C:G21 4.6 44.2 1.0 CA A:ASP1614 4.7 65.0 1.0 OE2 A:GLU1472 4.8 68.2 1.0

Magnesium binding site 3 out of 3 in the DMDICER2-Loqspd-Dsrna Active-Dicing Status


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of DMDICER2-Loqspd-Dsrna Active-Dicing Status within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:124.8 occ:1.00 O1A A:ADP1804 2.1 133.8 1.0 O2B A:ADP1804 3.2 133.8 1.0 PA A:ADP1804 3.6 133.8 1.0 CG A:ASP469 3.8 131.3 1.0 CB A:ASP469 3.9 131.3 1.0 OD2 A:ASP469 3.9 131.3 1.0 O3A A:ADP1804 4.2 133.8 1.0 PB A:ADP1804 4.2 133.8 1.0 OD1 A:ASP469 4.4 131.3 1.0 O A:GLY467 4.4 126.8 1.0 NE2 A:GLN72 4.4 120.5 1.0 OG1 A:THR30 4.4 119.3 1.0 O2A A:ADP1804 4.5 133.8 1.0 CA A:ASP469 4.5 131.3 1.0 O5' A:ADP1804 4.6 133.8 1.0 O3B A:ADP1804 4.7 133.8 1.0 N A:ASP469 4.9 131.3 1.0

S.Su, J.Wang, T.Deng, X.Yuan, J.He, N.Liu, X.Li, Y.Huang, H.W.Wang, J.Ma. Structural Insights Into Dsrna Processing By Drosophila Dicer-2-Loqs-Pd. Nature V. 607 399 2022.
ISSN: ESSN 1476-4687
PubMed: 35768513
DOI: 10.1038/S41586-022-04911-X