Magnesium in PDB 8dg7: Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III

The binding sites of Magnesium atom in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III (pdb code 8dg7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III, PDB code: 8dg7:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2301 b:37.4 occ:1.00 OE2 A:GLU1745 2.0 44.9 1.0 OP1 F:C39 2.0 40.2 1.0 OE1 A:GLU1908 2.0 53.1 1.0 CD A:GLU1745 2.9 44.7 1.0 OD1 A:ASP1905 3.1 51.5 1.0 CD A:GLU1908 3.1 43.8 1.0 CG A:GLU1745 3.2 39.3 1.0 P F:C39 3.4 58.9 1.0 OE2 A:GLU1908 3.7 40.0 1.0 C5' F:C39 3.9 41.8 1.0 O5' F:C39 4.0 47.4 1.0 OE1 A:GLU1745 4.1 40.6 1.0 CG A:ASP1905 4.1 50.1 1.0 CG A:GLU1908 4.1 39.8 1.0 O3' F:A38 4.1 42.6 1.0 CA A:ASP1905 4.3 52.4 1.0 CB A:GLU1908 4.5 45.3 1.0 NZ A:LYS1901 4.5 58.4 1.0 OP2 F:C39 4.5 44.6 1.0 OD1 A:ASN1782 4.6 67.0 1.0 CB A:GLU1745 4.7 38.0 1.0 N A:ASP1905 4.7 48.0 1.0 CB A:ASP1905 4.7 49.0 1.0 CB A:ASP1749 4.8 44.2 1.0 O A:ALA1904 4.8 32.0 1.0 CE A:LYS1901 4.9 58.1 1.0 C A:ALA1904 5.0 40.1 1.0 MG A:MG2302 5.0 30.2 1.0 OD2 A:ASP1905 5.0 54.8 1.0

Magnesium binding site 2 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2302 b:30.2 occ:1.00 OE2 A:GLU1908 2.0 40.0 1.0 OD1 A:ASP1749 2.0 48.8 1.0 O2' F:A38 2.5 47.1 1.0 O3' F:A38 3.1 42.6 1.0 CD A:GLU1908 3.2 43.8 1.0 CG A:ASP1749 3.2 49.9 1.0 C2' F:A38 3.6 39.7 1.0 C3' F:A38 3.7 49.0 1.0 CG1 A:VAL1780 3.8 48.3 1.0 OE1 A:GLU1908 3.8 53.1 1.0 O A:VAL1780 3.8 44.9 1.0 CB A:ASP1749 3.9 44.2 1.0 C4' F:A38 3.9 52.3 1.0 CD1 A:LEU1785 4.1 54.4 1.0 OD2 A:ASP1749 4.2 46.3 1.0 CG A:GLU1908 4.3 39.8 1.0 CA A:ASP1749 4.3 37.4 1.0 OD1 A:ASN1782 4.4 67.0 1.0 P F:C39 4.4 58.9 1.0 OP1 F:C39 4.5 40.2 1.0 CD1 A:LEU1752 4.5 61.4 1.0 O A:ASP1749 4.6 54.4 1.0 C1' F:A38 4.6 33.9 1.0 O4' F:A38 4.6 36.2 1.0 C A:VAL1780 4.8 43.2 1.0 C A:ASP1749 4.9 37.7 1.0 C5' F:C39 4.9 41.8 1.0 MG A:MG2301 5.0 37.4 1.0

Magnesium binding site 3 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2303 b:40.1 occ:1.00 OE1 A:GLU1742 3.9 51.9 1.0 C5' F:U40 4.4 36.7 1.0 CD A:GLU1742 4.6 50.2 1.0 OE2 A:GLU1742 4.8 39.1 1.0 OP2 F:U40 4.9 36.0 1.0

Magnesium binding site 4 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2304 b:103.0 occ:1.00 O1P E:U5P101 2.0 96.6 1.0 C5' E:U5P101 2.4 87.5 1.0 O5' E:U5P101 2.9 93.0 1.0 P E:U5P101 3.2 102.7 1.0 C4' E:U5P101 3.7 81.4 1.0 NH1 A:ARG1200 3.8 71.3 1.0 OP1 E:G2 3.9 78.6 1.0 O2P E:U5P101 4.0 89.3 1.0 C3' E:U5P101 4.1 82.6 1.0 N A:ALA1199 4.2 51.5 1.0 CZ A:ARG1200 4.2 73.8 1.0 O3P E:U5P101 4.3 92.4 1.0 CB A:ALA1199 4.3 59.2 1.0 N A:ARG1200 4.4 70.8 1.0 CG A:ARG1200 4.5 68.1 1.0 O3' E:U5P101 4.6 79.0 1.0 NE A:ARG1200 4.6 70.7 1.0 CA A:ALA1199 4.7 58.2 1.0 CD A:ARG1200 4.7 67.7 1.0 O4' E:U5P101 4.8 79.1 1.0 NH2 A:ARG1200 4.8 73.5 1.0 OP1 E:A3 4.9 83.7 1.0 P E:G2 4.9 73.4 1.0 CB A:ARG1200 4.9 68.0 1.0 C A:ALA1199 4.9 65.0 1.0

Magnesium binding site 5 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg102 b:45.0 occ:1.00 N7 E:G11 2.9 44.2 1.0 C8 E:G11 3.0 39.2 1.0 OP2 E:G11 3.9 46.4 1.0 C5' E:G11 4.1 47.4 1.0 C5 E:G11 4.2 41.6 1.0 N9 E:G11 4.2 25.1 1.0 N7 E:G12 4.4 57.6 1.0 C8 E:G12 4.6 51.6 1.0 O4' E:G11 4.7 40.0 1.0 C4' E:G11 4.8 41.2 1.0 C4 E:G11 4.8 34.5 1.0 C3' E:G11 4.9 44.8 1.0 C8 E:A10 4.9 52.3 1.0 C3' E:A10 5.0 50.7 1.0 N9 E:A10 5.0 48.8 1.0 N7 E:A10 5.0 44.0 1.0

Magnesium binding site 6 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg103 b:44.3 occ:1.00 O3' E:A22 2.1 49.2 1.0 C3' E:A22 2.5 50.3 1.0 C2' E:A22 3.3 53.6 1.0 C4' E:A22 3.8 44.5 1.0 O5' E:A22 3.9 53.0 1.0 O2' E:A22 4.1 53.9 1.0 C5' E:A22 4.2 52.1 1.0 C1' E:A22 4.5 44.2 1.0 O4' E:A22 4.7 32.7 1.0 N9 E:A22 4.7 42.6 1.0 C8 E:A22 4.8 44.2 1.0 P E:A22 5.0 55.0 1.0

Magnesium binding site 7 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg104 b:98.1 occ:1.00 OP1 E:G2 2.0 78.6 1.0 OP2 E:A3 2.5 87.4 1.0 P E:G2 3.0 73.4 1.0 OP2 E:G2 3.3 75.1 1.0 O5' E:G2 3.8 73.4 1.0 P E:A3 3.9 83.4 1.0 O3' E:U5P101 4.4 79.0 1.0 OP1 E:A3 4.6 83.7 1.0 C5' E:G2 4.7 75.4 1.0 C3' E:G2 4.7 78.0 1.0 O3' E:G2 4.8 77.2 1.0 C3' E:U5P101 4.8 82.6 1.0 O5' E:A3 4.8 77.5 1.0

Magnesium binding site 8 out of 8 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex III within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg101 b:42.9 occ:1.00 OP2 F:A41 2.1 48.4 1.0 P F:A41 3.5 30.1 1.0 N7 F:A41 3.7 43.7 1.0 C8 F:A41 4.0 36.7 1.0 O5' F:A41 4.0 35.1 1.0 C3' F:U40 4.1 36.1 1.0 O3' F:U40 4.3 35.0 1.0 OP1 F:A41 4.5 34.2 1.0 C6 F:U40 4.6 38.8 1.0 C2' F:U40 4.6 34.3 1.0 C5 F:U40 4.9 38.7 1.0 C5 F:A41 4.9 41.3 1.0

K.Jouravleva, D.Golovenko, G.Demo, R.C.Dutcher, T.M.T.Hall, P.D.Zamore, A.A.Korostelev. Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb. Mol.Cell V. 82 4049 2022.
ISSN: ISSN 1097-2765
PubMed: 36182693
DOI: 10.1016/J.MOLCEL.2022.09.002