Fluorine in PDB 7v3t: Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands

The structure of Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands also contains other interesting chemical elements:

Platinum

(Pt)

10 atoms

The binding sites of Fluorine atom in the Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands (pdb code 7v3t). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands, PDB code: 7v3t:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in the Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands within 5.0Å range: probe atom residue distance (Å) B Occ A:F101 b:0.0 occ:1.00 F2 A:5L1101 0.0 0.0 1.0 C9 A:5L1101 1.4 0.0 1.0 C22 A:5L1101 2.2 0.0 1.0 C8 A:5L1101 2.3 0.0 1.0 C10 A:5L1101 2.4 0.0 1.0 H22 A:5L1101 2.4 0.0 1.0 H8 A:5L1101 2.6 0.0 1.0 H10 A:5L1101 2.6 0.0 1.0 C21 A:5L1101 2.6 0.0 1.0 C23 A:5L1101 2.6 0.0 1.0 H21 A:5L1101 3.0 0.0 1.0 H23 A:5L1101 3.1 0.0 1.0 O6 A:DG5 3.1 0.0 1.0 C6 A:DG5 3.2 0.0 1.0 C24 A:5L1101 3.3 0.0 1.0 N5 A:5L1101 3.3 0.0 1.0 N1 A:DG5 3.4 0.0 1.0 H1 A:DG5 3.4 0.0 1.0 C7 A:5L1101 3.5 0.0 1.0 C25 A:5L1101 3.6 0.0 1.0 C11 A:5L1101 3.6 0.0 1.0 C5 A:DG5 3.8 0.0 1.0 H24 A:5L1101 4.1 0.0 1.0 O6 A:DG2 4.1 0.0 1.0 C6 A:5L1101 4.1 0.0 1.0 H1 A:DG11 4.1 0.0 1.0 C2 A:DG5 4.2 0.0 1.0 C4 A:DG5 4.5 0.0 1.0 N7 A:DG5 4.5 0.0 1.0 H21 A:DG11 4.6 0.0 1.0 F1 A:5L1101 4.7 0.0 1.0 N3 A:DG5 4.7 0.0 1.0 N1 A:DG11 4.8 0.0 1.0 C6 A:DG2 4.8 0.0 1.0 N6 A:5L1101 4.8 0.0 1.0 H21 A:DG5 4.8 0.0 1.0 N2 A:DG5 4.9 0.0 1.0

Fluorine binding site 2 out of 2 in the Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Solution Structure of Thrombin Binding Aptamer G-Quadruplex Bound A Self-Adaptive Small Molecule with Rotated Ligands within 5.0Å range: probe atom residue distance (Å) B Occ A:F101 b:0.0 occ:1.00 F1 A:5L1101 0.0 0.0 1.0 C7 A:5L1101 1.4 0.0 1.0 H4 A:5L1101 2.1 0.0 1.0 C8 A:5L1101 2.3 0.0 1.0 C6 A:5L1101 2.4 0.0 1.0 O4' A:DG5 2.6 0.1 1.0 H8 A:5L1101 2.6 0.0 1.0 C4 A:5L1101 2.8 0.0 1.0 C5 A:5L1101 2.9 0.0 1.0 N9 A:DG5 3.0 0.0 1.0 C1' A:DG5 3.1 0.1 1.0 C4 A:DG5 3.3 0.0 1.0 H1' A:DG5 3.3 0.1 1.0 C8 A:DG5 3.5 0.0 1.0 C9 A:5L1101 3.5 0.0 1.0 H2' A:DT4 3.6 0.3 1.0 C11 A:5L1101 3.6 0.0 1.0 N3 A:DG5 3.7 0.0 1.0 H2'' A:DT4 3.8 0.4 1.0 C5 A:DG5 3.8 0.0 1.0 H8 A:DG5 3.9 0.0 1.0 C4' A:DG5 3.9 0.2 1.0 N7 A:DG5 4.0 0.0 1.0 C10 A:5L1101 4.1 0.0 1.0 C3 A:5L1101 4.1 0.0 1.0 H4' A:DG5 4.1 0.3 1.0 C2' A:DT4 4.2 0.3 1.0 O5' A:DG5 4.2 0.4 1.0 N1 A:5L1101 4.3 0.0 1.0 C5' A:DG5 4.5 0.3 1.0 C2 A:DG5 4.5 0.0 1.0 H3 A:5L1101 4.5 0.0 1.0 C2' A:DG5 4.6 0.1 1.0 H5'' A:DG5 4.7 0.4 1.0 F2 A:5L1101 4.7 0.0 1.0 O2 A:DT4 4.7 0.0 1.0 C6 A:DG5 4.7 0.0 1.0 H2' A:DG5 4.9 0.2 1.0 C2 A:DT4 4.9 0.0 1.0 H21 A:5L1101 4.9 0.0 1.0 N1 A:DG5 5.0 0.0 1.0 C3' A:DG5 5.0 0.2 1.0 N1 A:DT4 5.0 0.0 1.0

B.C.Zhu, J.He, X.Y.Xia, J.Jiang, W.Liu, L.Y.Liu, B.B.Liang, H.G.Yao, Z.Ke, W.Xia, Z.W.Mao. Solution Structure of A Thrombin Binding Aptamer Complex with A Non-Planar Platinum(II) Compound. Chem Sci V. 13 8371 2022.
ISSN: ISSN 2041-6520
PubMed: 35919711
DOI: 10.1039/D2SC01196D