Sodium in PDB 7d12: uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex

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>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Sodium atom in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex (pdb code 7d12). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 15 binding sites of Sodium where determined in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex, PDB code: 7d12:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Sodium binding site 1 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:0.0 occ:1.00 OP1 A:A6 2.3 0.0 1.0 OP2 A:G7 2.3 0.0 1.0 H5'' A:A6 2.7 0.0 1.0 P A:A6 3.2 0.0 1.0 O5' A:A6 3.3 0.0 1.0 C5' A:A6 3.5 0.0 1.0 P A:G7 3.7 0.0 1.0 OP2 A:A6 3.9 0.0 1.0 H3' A:A6 4.0 0.0 1.0 H5' A:A6 4.1 0.0 1.0 O3' A:A6 4.2 0.0 1.0 C3' A:A6 4.4 0.0 1.0 C4' A:A6 4.5 0.0 1.0 O3' A:C5 4.5 0.0 1.0 OP1 A:G7 4.6 0.0 1.0 O5' A:G7 4.7 0.0 1.0 H4' A:A6 5.0 0.0 1.0

Sodium binding site 2 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na103 b:0.0 occ:1.00 OP2 A:G19 2.2 0.0 1.0 P A:G19 3.7 0.0 1.0 H3' A:A18 4.0 0.0 1.0 OP2 A:A18 4.1 0.0 1.0 O5' A:A18 4.2 0.0 1.0 OP1 A:A18 4.2 0.0 1.0 H5'' A:A18 4.3 0.0 1.0 P A:A18 4.4 0.0 1.0 OP1 A:G19 4.4 0.0 1.0 O3' A:A18 4.5 0.0 1.0 O5' A:G19 4.5 0.0 1.0 C3' A:A18 4.7 0.0 1.0 C5' A:A18 4.8 0.0 1.0

Sodium binding site 3 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na104 b:0.0 occ:1.00 OP2 A:C14 2.3 0.0 1.0 O5' A:G13 2.6 0.0 1.0 H4' A:G13 3.2 0.0 1.0 H5' A:G13 3.2 0.0 1.0 C5' A:G13 3.3 0.0 1.0 OP1 A:G13 3.3 0.0 1.0 P A:C14 3.4 0.0 1.0 P A:G13 3.5 0.0 1.0 C4' A:G13 3.6 0.0 1.0 HO2' A:G12 3.7 0.0 1.0 O3' A:G13 3.8 0.0 1.0 OP1 A:C14 4.0 0.0 1.0 C3' A:G13 4.2 0.0 1.0 H5'' A:G13 4.3 0.0 1.0 OP2 A:G13 4.4 0.0 1.0 NA A:NA110 4.4 0.0 1.0 O2' A:G12 4.6 0.0 1.0 H3' A:G13 4.6 0.0 1.0 O3' A:G12 4.8 0.0 1.0 O5' A:C14 4.8 0.0 1.0 O4' A:G13 4.9 0.0 1.0

Sodium binding site 4 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na105 b:0.0 occ:1.00 OP1 A:U9 2.2 0.0 1.0 P A:U9 3.4 0.0 1.0 H5'' A:U9 3.5 0.0 1.0 H5' A:U9 3.5 0.0 1.0 O3' A:C8 3.5 0.0 1.0 C5' A:U9 3.8 0.0 1.0 O5' A:U9 4.1 0.0 1.0 OP2 A:U9 4.6 0.0 1.0 O2' A:C8 4.7 0.0 1.0 C3' A:C8 4.8 0.0 1.0

Sodium binding site 5 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na106 b:0.0 occ:1.00 OP1 A:G7 2.2 0.0 1.0 P A:G7 3.4 0.0 1.0 H4' A:G7 3.4 0.0 1.0 O3' A:A6 3.5 0.0 1.0 NA A:NA113 3.5 0.0 1.0 OP1 A:C8 3.6 0.0 1.0 OP2 A:G7 4.3 0.0 1.0 C4' A:G7 4.4 0.0 1.0 H5' A:G7 4.5 0.0 1.0 O5' A:G7 4.5 0.0 1.0 C5' A:G7 4.7 0.0 1.0 O3' A:G7 4.8 0.0 1.0 P A:C8 4.9 0.0 1.0 C3' A:A6 4.9 0.0 1.0

Sodium binding site 6 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na107 b:0.0 occ:1.00 OP1 A:C17 2.3 0.0 1.0 O3' A:G16 2.7 0.0 1.0 P A:C17 3.0 0.0 1.0 H5'' A:C17 3.2 0.0 1.0 HO2' A:G16 3.2 0.0 1.0 H5' A:C17 3.3 0.0 1.0 C5' A:C17 3.5 0.0 1.0 O5' A:C17 3.7 0.0 1.0 C3' A:G16 4.0 0.0 1.0 H4' A:G16 4.2 0.0 1.0 O2' A:G16 4.2 0.0 1.0 H5' A:G16 4.3 0.0 1.0 OP2 A:C17 4.3 0.0 1.0 OP1 A:G16 4.5 0.0 1.0 C4' A:G16 4.6 0.0 1.0 C2' A:G16 4.7 0.0 1.0 H3' A:G16 4.8 0.0 1.0

Sodium binding site 7 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range:

Sodium binding site 8 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na109 b:0.0 occ:1.00 OP1 A:C5 3.6 0.0 1.0 P A:C5 5.0 0.0 1.0

Sodium binding site 9 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 9 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na110 b:0.0 occ:1.00 NA A:NA104 4.4 0.0 1.0 OP1 A:G13 4.8 0.0 1.0 HO2' A:G12 5.0 0.0 1.0

Sodium binding site 10 out of 15 in the uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 10 of uc(Nmr) Solution Structures of Cag Rna-DB213 Binding Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na111 b:0.0 occ:1.00 OP2 A:C20 4.0 0.0 1.0

S.Peng, P.Guo, X.Lin, Y.An, K.H.Sze, M.H.Y.Lau, Z.S.Chen, Q.Wang, W.Li, J.K.Sun, S.Y.Ma, T.F.Chan, K.F.Lau, J.C.K.Ngo, K.M.Kwan, C.H.Wong, S.L.Lam, S.C.Zimmerman, T.Tuccinardi, Z.Zuo, H.Y.Au-Yeung, H.M.Chow, H.Y.E.Chan. Cag Rnas Induce Dna Damage and Apoptosis By Silencing NUDT16 Expression in Polyglutamine Degeneration. Proc.Natl.Acad.Sci.Usa V. 118 2021.
ISSN: ESSN 1091-6490
PubMed: 33947817
DOI: 10.1073/PNAS.2022940118