Sodium in PDB 8x4f: Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats

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>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Sodium atom in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats (pdb code 8x4f). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 13 binding sites of Sodium where determined in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats, PDB code: 8x4f:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Sodium binding site 1 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na101 b:0.0 occ:1.00 O4 A:DT6 2.4 0.0 1.0 O6 A:DG7 2.4 0.0 1.0 O4 A:DT9 2.5 0.0 1.0 H3 A:DT6 2.8 0.0 1.0 C6 A:DG7 2.9 0.0 1.0 C4 A:DT6 3.2 0.0 1.0 N3 A:DT6 3.4 0.0 1.0 C5 A:DG7 3.5 0.0 1.0 H72 A:DT9 3.7 0.0 1.0 C4 A:DT9 3.7 0.0 1.0 N1 A:DG7 3.7 0.0 1.0 N7 A:DG7 3.9 0.0 1.0 H1 A:DG7 4.0 0.0 1.0 H71 A:DT9 4.3 0.0 1.0 C7 A:DT9 4.3 0.0 1.0 C4 A:DG7 4.5 0.0 1.0 C5 A:DT9 4.5 0.0 1.0 C5 A:DT6 4.6 0.0 1.0 H41 A:DC5 4.6 0.0 1.0 H3 A:DT9 4.6 0.0 1.0 N3 A:DT9 4.7 0.0 1.0 C2 A:DT6 4.7 0.0 1.0 C2 A:DG7 4.7 0.0 1.0 O6 A:DG10 4.7 0.0 1.0 N4 A:DC5 4.8 0.0 1.0 C8 A:DG7 5.0 0.0 1.0

Sodium binding site 2 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na102 b:0.0 occ:1.00 OP1 A:DT9 2.4 0.0 1.0 OP2 A:DT9 2.4 0.0 1.0 P A:DT9 2.8 0.0 1.0 O3' A:DC8 3.9 0.0 1.0 O5' A:DT9 4.0 0.0 1.0 H5' A:DT9 4.4 0.0 1.0 C5' A:DT9 4.7 0.0 1.0 H5'' A:DT9 4.9 0.0 1.0 H3' A:DC8 4.9 0.0 1.0

Sodium binding site 3 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na103 b:0.0 occ:1.00 O2 A:DT9 2.3 0.0 1.0 OP1 A:DG7 2.4 0.0 1.0 O5' A:DG7 2.4 0.0 1.0 H22 A:DG10 2.5 0.0 1.0 N3 A:DG10 2.6 0.0 1.0 N2 A:DG10 2.7 0.0 1.0 O2 A:DT6 2.7 0.0 1.0 C2 A:DG10 2.8 0.0 1.0 P A:DG7 3.0 0.0 1.0 H3 A:DT9 3.0 0.0 1.0 H1' A:DT6 3.2 0.0 1.0 C2 A:DT9 3.3 0.0 1.0 H21 A:DG10 3.3 0.0 1.0 O4' A:DG7 3.4 0.0 1.0 H2'' A:DT6 3.4 0.0 1.0 C4 A:DG10 3.5 0.0 1.0 N3 A:DT9 3.6 0.0 1.0 C5' A:DG7 3.6 0.0 1.0 O3' A:DT6 3.7 0.0 1.0 N1 A:DG10 3.7 0.0 1.0 C2 A:DT6 3.8 0.0 1.0 H1' A:DG10 3.9 0.0 1.0 C4' A:DG7 3.9 0.0 1.0 O4' A:DC11 3.9 0.0 1.0 H1' A:DC11 4.0 0.0 1.0 H4' A:DC11 4.0 0.0 1.0 C1' A:DT6 4.1 0.0 1.0 H4' A:DG7 4.2 0.0 1.0 C2' A:DT6 4.2 0.0 1.0 H5' A:DG7 4.2 0.0 1.0 H1 A:DG10 4.2 0.0 1.0 OP2 A:DG7 4.3 0.0 1.0 N9 A:DG10 4.3 0.0 1.0 H5'' A:DG7 4.3 0.0 1.0 H1' A:DT9 4.3 0.0 1.0 C5 A:DG10 4.4 0.0 1.0 C1' A:DC11 4.4 0.0 1.0 N1 A:DT6 4.5 0.0 1.0 C6 A:DG10 4.5 0.0 1.0 C1' A:DG10 4.5 0.0 1.0 N1 A:DT9 4.6 0.0 1.0 C3' A:DT6 4.6 0.0 1.0 C4' A:DC11 4.6 0.0 1.0 C1' A:DG7 4.7 0.0 1.0 O2 A:DC5 4.8 0.0 1.0 N1 A:DC11 4.9 0.0 1.0 H3 A:DT6 4.9 0.0 1.0 C4 A:DT9 4.9 0.0 1.0 N3 A:DT6 4.9 0.0 1.0 O2 A:DC11 5.0 0.0 1.0

Sodium binding site 4 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na104 b:0.0 occ:1.00 OP1 A:DG13 2.3 0.0 1.0 OP2 A:DT6 2.3 0.0 1.0 P A:DT6 3.0 0.0 1.0 P A:DG13 3.1 0.0 1.0 OP2 A:DG13 3.1 0.0 1.0 OP1 A:DT6 3.2 0.0 1.0 O5' A:DT6 3.3 0.0 1.0 O3' A:DT12 3.9 0.0 1.0 NA A:NA113 3.9 0.0 1.0 H4' A:DC5 4.2 0.0 1.0 C5' A:DT6 4.5 0.0 1.0 O5' A:DG13 4.5 0.0 1.0 O3' A:DC5 4.5 0.0 1.0 H5' A:DT6 4.6 0.0 1.0 H4' A:DT6 4.7 0.0 1.0 H5' A:DG13 4.7 0.0 1.0 H5'' A:DG13 5.0 0.0 1.0

Sodium binding site 5 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na105 b:0.0 occ:1.00 OP2 A:DC8 2.4 0.0 1.0 OP1 A:DC8 2.4 0.0 1.0 P A:DC8 2.8 0.0 1.0 O5' A:DC8 3.6 0.0 1.0 O3' A:DG7 4.2 0.0 1.0 C5' A:DC8 4.6 0.0 1.0 H5'' A:DC8 4.6 0.0 1.0 H5' A:DC8 4.6 0.0 1.0 H3' A:DG7 4.7 0.0 1.0 H4' A:DG7 4.9 0.0 1.0 C3' A:DG7 4.9 0.0 1.0

Sodium binding site 6 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na106 b:0.0 occ:1.00 OP2 A:DC2 2.4 0.0 1.0 OP1 A:DC2 2.4 0.0 1.0 P A:DC2 2.8 0.0 1.0 O5' A:DC2 3.9 0.0 1.0 H3' A:DG1 4.0 0.0 1.0 O3' A:DG1 4.1 0.0 1.0 H5'' A:DG1 4.3 0.0 1.0 C3' A:DG1 4.5 0.0 1.0 H5'' A:DC2 4.7 0.0 1.0 C5' A:DC2 4.8 0.0 1.0 H5' A:DC2 4.9 0.0 1.0 H4' A:DG1 4.9 0.0 1.0

Sodium binding site 7 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na107 b:0.0 occ:1.00 OP1 A:DC5 2.4 0.0 1.0 OP2 A:DC5 2.4 0.0 1.0 P A:DC5 2.8 0.0 1.0 O5' A:DC5 3.9 0.0 1.0 O3' A:DG4 4.1 0.0 1.0 H3' A:DG4 4.5 0.0 1.0 H5'' A:DC5 4.7 0.0 1.0 C3' A:DG4 4.8 0.0 1.0 C5' A:DC5 4.9 0.0 1.0

Sodium binding site 8 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na108 b:0.0 occ:1.00 OP2 A:DT12 2.2 0.0 1.0 H71 A:DT12 2.7 0.0 1.0 H3' A:DC11 3.0 0.0 1.0 H2'' A:DC11 3.1 0.0 1.0 H2' A:DC11 3.1 0.0 1.0 C2' A:DC11 3.3 0.0 1.0 C3' A:DC11 3.5 0.0 1.0 P A:DT12 3.6 0.0 1.0 C7 A:DT12 3.7 0.0 1.0 H73 A:DT12 3.9 0.0 1.0 O3' A:DC11 4.0 0.0 1.0 H72 A:DT12 4.1 0.0 1.0 H6 A:DT12 4.2 0.0 1.0 O5' A:DT12 4.6 0.0 1.0 OP1 A:DT12 4.6 0.0 1.0 C5 A:DT12 4.8 0.0 1.0 O5' A:DC11 4.9 0.0 1.0 C1' A:DC11 4.9 0.0 1.0 C6 A:DT12 4.9 0.0 1.0 C4' A:DC11 4.9 0.0 1.0

Sodium binding site 9 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 9 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na109 b:0.0 occ:1.00 OP1 A:DT3 2.4 0.0 1.0 H5'' A:DT3 2.4 0.0 1.0 OP1 A:DG4 2.5 0.0 1.0 OP2 A:DG4 2.5 0.0 1.0 O5' A:DT3 2.7 0.0 1.0 P A:DG4 2.9 0.0 1.0 C5' A:DT3 3.0 0.0 1.0 P A:DT3 3.0 0.0 1.0 H3' A:DT3 3.3 0.0 1.0 C3' A:DT3 3.7 0.0 1.0 O3' A:DT3 3.8 0.0 1.0 OP2 A:DT3 3.8 0.0 1.0 C4' A:DT3 3.9 0.0 1.0 H5' A:DT3 3.9 0.0 1.0 O5' A:DG4 4.3 0.0 1.0 H4' A:DT3 4.4 0.0 1.0 O3' A:DC2 4.4 0.0 1.0

Sodium binding site 10 out of 13 in the Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 10 of Solution uc(Nmr) Structure of A Dna Hairpin Formed By Pure Ctg Repeats within 5.0Å range: probe atom residue distance (Å) B Occ A:Na110 b:0.0 occ:1.00 OP2 A:DC14 2.4 0.0 1.0 OP1 A:DC14 2.4 0.0 1.0 P A:DC14 2.8 0.0 1.0 O5' A:DC14 3.9 0.0 1.0 H3' A:DG13 4.0 0.0 1.0 O3' A:DG13 4.1 0.0 1.0 H5'' A:DG13 4.4 0.0 1.0 C3' A:DG13 4.5 0.0 1.0 H5' A:DC14 4.9 0.0 1.0 C5' A:DC14 4.9 0.0 1.0

P.Guo, D.Han, L.Wan. High-Resolution uc(Nmr) Structures of Intrastrand Hairpins Formed By Ctg Trinucleotide Repeats Acs Chem Neurosci 2024.
ISSN: ESSN 1948-7193
DOI: 10.1021/ACSCHEMNEURO.3C00769