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

Other elements in 7v3t:

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

Fluorine Binding Sites:

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 7v3t

Go back to Fluorine Binding Sites List in 7v3t
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 7v3t

Go back to Fluorine Binding Sites List in 7v3t
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

Reference:

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
Page generated: Wed Apr 5 01:33:04 2023

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