Calcium in PDB 8dfv: Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia

The binding sites of Calcium atom in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia (pdb code 8dfv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia, PDB code: 8dfv:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2301 b:48.5 occ:1.00 OE1 A:GLU2139 2.3 36.1 1.0 OP1 E:G23 2.3 27.8 1.0 OE2 A:GLU2032 2.3 39.3 1.0 CD A:GLU2032 3.1 42.7 1.0 CG A:GLU2032 3.2 36.9 1.0 CD A:GLU2139 3.4 38.9 1.0 OD1 A:ASP2136 3.5 32.5 1.0 P E:G23 3.6 25.7 1.0 CG A:ASP2136 3.8 33.9 1.0 OE2 A:GLU2139 3.9 43.6 1.0 O5' E:G23 4.1 26.9 1.0 C5' E:G23 4.2 28.2 1.0 OD2 A:ASP2136 4.2 35.9 1.0 OP2 E:U24 4.3 34.2 1.0 OE1 A:GLU2032 4.3 37.1 1.0 OP2 E:G23 4.4 20.9 1.0 CB A:ASP2136 4.5 31.1 1.0 NZ A:LYS2132 4.5 32.3 1.0 CA A:ASP2136 4.5 29.7 1.0 CG A:GLU2139 4.6 28.6 1.0 CB A:GLU2032 4.7 27.0 1.0 O3' E:A22 4.8 13.8 1.0 OP1 E:U24 4.8 38.6 1.0 O A:GLU2032 5.0 50.0 1.0 P E:U24 5.0 33.5 1.0

Calcium binding site 2 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2302 b:45.9 occ:1.00 OE2 A:GLU1745 2.3 39.6 1.0 OP1 E:C39 2.3 13.4 1.0 OD1 A:ASP1905 2.4 33.5 1.0 NZ A:LYS1901 2.5 55.1 1.0 OE1 A:GLU1908 3.2 36.1 1.0 CD A:GLU1745 3.3 37.4 1.0 CG A:ASP1905 3.3 33.9 1.0 P E:C39 3.7 18.9 1.0 CE A:LYS1901 3.8 53.0 1.0 OD2 A:ASP1905 3.8 38.7 1.0 CD A:GLU1908 4.0 35.1 1.0 OE1 A:GLU1745 4.1 37.3 1.0 OE2 A:GLU1908 4.1 38.6 1.0 CG A:GLU1745 4.2 20.1 1.0 O5' E:C39 4.3 16.4 1.0 C5' E:C39 4.3 17.8 1.0 OP2 E:C39 4.4 17.3 1.0 CB A:ASP1905 4.4 29.6 1.0 CA A:ASP1905 4.4 34.7 1.0 OP2 E:U40 4.7 22.3 1.0 O3' E:A38 4.8 12.8 1.0 N A:ASP1905 4.8 40.9 1.0 OD1 A:ASN1782 4.8 46.1 1.0 CD A:LYS1901 4.9 49.6 1.0 CG A:LYS1901 5.0 38.4 1.0

Calcium binding site 3 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2303 b:44.3 occ:1.00 OE2 A:GLU1908 2.4 38.6 1.0 OD1 A:ASP1749 2.5 48.7 1.0 CD A:GLU1908 3.2 35.1 1.0 O3' E:A38 3.5 12.8 1.0 O A:VAL1780 3.5 36.8 1.0 CG A:ASP1749 3.6 45.8 1.0 CD1 A:LEU1785 3.7 39.1 1.0 CD2 A:LEU1752 3.7 44.5 1.0 CG A:GLU1908 3.8 30.4 1.0 CB A:ASP1749 4.0 33.1 1.0 CG2 A:VAL1780 4.0 36.2 1.0 C4' E:A38 4.0 8.3 1.0 CA A:ASP1749 4.0 30.5 1.0 O2' E:A38 4.1 16.6 1.0 OE1 A:GLU1908 4.1 36.1 1.0 C3' E:A38 4.2 12.7 1.0 OP1 E:C39 4.4 13.4 1.0 O A:ASP1749 4.5 38.3 1.0 C5' E:A38 4.5 16.0 1.0 P E:C39 4.6 18.9 1.0 C A:VAL1780 4.7 32.6 1.0 OD2 A:ASP1749 4.7 39.8 1.0 C A:ASP1749 4.7 31.5 1.0 C2' E:A38 4.8 16.5 1.0 CG A:LEU1752 4.9 45.7 1.0

Calcium binding site 4 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2304 b:71.7 occ:1.00 CD2 A:HIS1671 2.7 66.6 1.0 CB A:HIS1671 2.8 66.0 1.0 CG A:HIS1671 2.9 65.2 1.0 OD2 A:ASP876 3.3 42.9 1.0 NE2 A:HIS1671 3.9 66.3 1.0 O A:ASP1669 3.9 36.7 1.0 CA A:HIS1671 4.0 63.5 1.0 ND1 A:HIS1671 4.1 70.5 1.0 N A:HIS1671 4.2 64.1 1.0 C A:HIS1670 4.4 65.3 1.0 CE1 A:HIS1671 4.5 68.4 1.0 CG A:ASP876 4.5 43.7 1.0 C A:ASP1669 4.6 48.8 1.0 O A:HIS1670 4.6 64.8 1.0 CD A:PRO1980 4.7 84.9 1.0 CB A:ALA1979 4.8 74.6 1.0 CA A:ALA1979 5.0 73.3 1.0 N A:HIS1670 5.0 63.5 1.0

Calcium binding site 5 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca101 b:30.6 occ:1.00 OP2 E:A38 3.4 13.6 1.0 OP2 E:A36 3.5 44.8 1.0 O5' E:A36 3.8 44.4 1.0 C5 E:U37 4.1 17.0 1.0 OP1 E:U37 4.2 26.4 1.0 N7 E:A38 4.2 3.2 1.0 CA E:CA102 4.3 44.4 1.0 P E:A36 4.4 50.1 1.0 C6 E:U37 4.4 18.5 1.0 P E:A38 4.8 5.3 1.0 C8 E:A38 4.8 8.6 1.0 C4 E:U37 4.8 17.1 1.0

Calcium binding site 6 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca102 b:44.4 occ:1.00 O4 E:U37 2.8 17.1 1.0 OP2 E:A36 3.2 44.8 1.0 C4 E:U37 3.6 17.1 1.0 C5 E:U37 3.6 17.0 1.0 C5 E:C35 3.8 38.1 1.0 C6 E:C35 3.8 39.1 1.0 C4 E:C35 4.0 38.9 1.0 N1 E:C35 4.1 38.5 1.0 C2' E:C35 4.2 39.9 1.0 N3 E:C35 4.2 39.9 1.0 C2 E:C35 4.3 38.4 1.0 CA E:CA101 4.3 30.6 1.0 C3' E:C35 4.4 40.2 1.0 N6 E:A38 4.5 14.5 1.0 N4 E:C35 4.6 35.1 1.0 P E:A36 4.6 50.1 1.0 C1' E:C35 4.8 39.0 1.0 N3 E:U37 4.9 16.6 1.0 C6 E:U37 4.9 18.5 1.0 N6 E:A22 4.9 14.4 1.0 O3' E:C35 5.0 41.3 1.0 O2 E:C35 5.0 32.3 1.0

Calcium binding site 7 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca103 b:42.9 occ:1.00 O2' E:C35 2.8 40.9 1.0 O2 E:C35 3.7 32.3 1.0 O5' E:U37 3.8 25.6 1.0 C2' E:C35 3.9 39.9 1.0 OP2 E:U37 4.0 29.2 1.0 C1' E:C35 4.0 39.0 1.0 P E:U37 4.2 33.8 1.0 O4' E:U37 4.2 20.6 1.0 OP1 E:U37 4.3 26.4 1.0 C6 E:U37 4.3 18.5 1.0 N2 E:G23 4.7 20.6 1.0 C2 E:C35 4.7 38.4 1.0 C5 E:U37 4.8 17.0 1.0 O4' E:C35 4.9 40.1 1.0 N1 E:U37 4.9 13.5 1.0 N1 E:C35 4.9 38.5 1.0

Calcium binding site 8 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca104 b:38.6 occ:1.00 OP3 E:U1 2.6 27.6 1.0 CE1 A:PHE1203 3.6 34.7 1.0 CB A:SER1198 3.7 32.6 1.0 OG A:SER1198 3.7 43.7 1.0 P E:U1 3.8 24.3 1.0 NH2 A:ARG1027 3.9 41.8 1.0 CZ A:PHE1203 3.9 35.3 1.0 OP1 E:U1 4.0 22.4 1.0 NH1 A:ARG1207 4.1 48.8 1.0 CZ A:ARG1027 4.1 45.3 1.0 CB A:ARG1027 4.1 40.9 1.0 CA A:SER1198 4.2 32.3 1.0 NE A:ARG1027 4.2 48.4 1.0 OP2 E:U1 4.5 25.4 1.0 O A:ARG1200 4.6 39.6 1.0 N A:ARG1027 4.7 38.0 1.0 CA A:ARG1027 4.7 42.1 1.0 CD1 A:PHE1203 4.8 32.0 1.0 N A:ALA1199 4.8 30.7 1.0 CZ A:ARG1207 4.8 48.3 1.0 NH1 A:ARG1027 4.9 47.3 1.0 O2 E:U1 4.9 31.7 1.0 CG A:ARG1027 4.9 49.7 1.0

Calcium binding site 9 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca105 b:52.9 occ:1.00 OP1 E:A3 2.4 43.5 1.0 CB A:ALA1199 3.3 31.8 1.0 P E:A3 3.4 46.1 1.0 OP2 E:A3 3.8 37.0 1.0 O3' E:G2 3.8 35.5 1.0 C5' E:U1 4.1 24.0 1.0 C5' E:G2 4.2 35.0 1.0 OP2 E:U1 4.4 25.4 1.0 C4' E:G2 4.5 34.9 1.0 CA A:ALA1199 4.6 31.0 1.0 C3' E:G2 4.7 37.1 1.0 O5' E:U1 4.7 26.5 1.0 O A:ALA1199 4.7 35.2 1.0 O5' E:A3 4.8 40.7 1.0 C A:ALA1199 4.9 32.7 1.0 O5' E:G2 4.9 39.3 1.0 C4' E:U1 4.9 22.8 1.0

Calcium binding site 10 out of 10 in the Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Structural Basis of Microrna Biogenesis By Dicer-1 and Its Partner Protein Loqs-Pb - Complex Iia within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca106 b:66.4 occ:1.00 N7 E:G4 2.4 37.2 1.0 C8 E:G4 3.4 36.3 1.0 C5 E:G4 3.5 38.6 1.0 O6 E:G4 3.6 35.3 1.0 N7 E:A3 3.7 37.3 1.0 C6 E:G4 3.9 38.0 1.0 C5 E:A3 4.1 38.9 1.0 C8 E:A3 4.1 38.9 1.0 C6 E:A3 4.5 40.1 1.0 N6 E:A3 4.5 40.5 1.0 N9 E:G4 4.6 32.7 1.0 OP2 E:G4 4.6 40.7 1.0 C4 E:G4 4.6 38.1 1.0 C4 E:A3 4.7 37.6 1.0 N9 E:A3 4.7 37.1 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