Fluorine in PDB 6tcg: 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract

The binding sites of Fluorine atom in the 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract (pdb code 6tcg). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract, PDB code: 6tcg:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in the 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract within 5.0Å range: probe atom residue distance (Å) B Occ A:F14 b:0.0 occ:1.00 F A:GF214 0.0 0.0 1.0 C2' A:GF214 1.4 0.0 1.0 H2' A:GF214 2.0 0.0 1.0 H22 A:DG1 2.3 0.0 1.0 C1' A:GF214 2.4 0.0 1.0 C3' A:GF214 2.5 0.0 1.0 H5'1 A:GFL15 2.5 0.0 1.0 H1' A:GF214 2.5 0.0 1.0 O3' A:GF214 2.7 0.0 1.0 F A:GFL15 2.8 0.0 1.0 H3' A:GF214 3.0 0.0 1.0 N9 A:GF214 3.1 0.0 1.0 O5' A:DG1 3.1 0.0 1.0 N2 A:DG1 3.1 0.0 1.0 HO5' A:DG1 3.3 0.0 1.0 H5' A:DG1 3.5 0.0 1.0 H21 A:DG1 3.5 0.0 1.0 C5' A:GFL15 3.5 0.0 1.0 O4' A:GF214 3.5 0.0 1.0 C4' A:GF214 3.6 0.0 1.0 C4 A:GF214 3.7 0.0 1.0 H8 A:GFL15 3.8 0.0 1.0 C5' A:DG1 3.8 0.0 1.0 O5' A:GFL15 3.8 0.0 1.0 H8 A:DG16 3.9 0.0 1.0 N3 A:GF214 3.9 0.0 1.0 P A:GFL15 3.9 0.0 1.0 C8 A:GF214 3.9 0.0 1.0 C8 A:GFL15 4.0 0.0 1.0 H4' A:GF214 4.0 0.0 1.0 C2' A:GFL15 4.1 0.0 1.0 C2 A:DG1 4.1 0.0 1.0 H5'2 A:GFL15 4.1 0.0 1.0 H5'' A:DG1 4.1 0.0 1.0 N3 A:DG1 4.2 0.0 1.0 H8 A:GF214 4.2 0.0 1.0 H3' A:GFL15 4.3 0.0 1.0 N9 A:GFL15 4.3 0.0 1.0 N7 A:GFL15 4.5 0.0 1.0 C4' A:GFL15 4.5 0.0 1.0 N7 A:DG16 4.5 0.0 1.0 C8 A:DG16 4.6 0.0 1.0 C3' A:GFL15 4.6 0.0 1.0 C1' A:GFL15 4.6 0.0 1.0 C5 A:GF214 4.6 0.0 1.0 O4' A:GFL15 4.6 0.0 1.0 O2P A:GFL15 4.7 0.0 1.0 N7 A:GF214 4.8 0.0 1.0 H2' A:GFL15 4.8 0.0 1.0 C5' A:GF214 4.9 0.0 1.0 O1P A:GFL15 4.9 0.0 1.0 C2 A:GF214 5.0 0.0 1.0

Fluorine binding site 2 out of 2 in the 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of 2'-F-Riboguanosine and 2'-F-Arabinoguanosine Modified G-Quadruplex with V-Loop and All-Syn G-Tract within 5.0Å range: probe atom residue distance (Å) B Occ A:F15 b:0.0 occ:1.00 F A:GFL15 0.0 0.0 1.0 C2' A:GFL15 1.4 0.0 1.0 H2' A:GFL15 2.0 0.0 1.0 H8 A:DG16 2.3 0.0 1.0 C3' A:GFL15 2.4 0.0 1.0 C1' A:GFL15 2.4 0.0 1.0 H3' A:GFL15 2.5 0.0 1.0 H5'1 A:GFL15 2.5 0.0 1.0 N9 A:GFL15 2.7 0.0 1.0 F A:GF214 2.8 0.0 1.0 C4' A:GFL15 3.0 0.0 1.0 H2' A:GF214 3.1 0.0 1.0 O4' A:GFL15 3.1 0.0 1.0 C5' A:GFL15 3.1 0.0 1.0 C8 A:DG16 3.2 0.0 1.0 H1' A:GFL15 3.3 0.0 1.0 C8 A:GFL15 3.4 0.0 1.0 C4 A:GFL15 3.4 0.0 1.0 C2' A:GF214 3.4 0.0 1.0 H22 A:DG1 3.6 0.0 1.0 O3' A:GFL15 3.6 0.0 1.0 H2' A:DG16 3.6 0.0 1.0 H8 A:GFL15 3.6 0.0 1.0 O5' A:GFL15 3.7 0.0 1.0 N7 A:DG16 3.7 0.0 1.0 H3' A:GF214 3.8 0.0 1.0 N3 A:GFL15 3.8 0.0 1.0 H21 A:DG1 3.9 0.0 1.0 O5' A:DG16 4.0 0.0 1.0 H4' A:GFL15 4.0 0.0 1.0 C3' A:GF214 4.0 0.0 1.0 H5'2 A:GFL15 4.1 0.0 1.0 N2 A:DG1 4.1 0.0 1.0 C5 A:GFL15 4.2 0.0 1.0 N9 A:DG16 4.2 0.0 1.0 N7 A:GFL15 4.2 0.0 1.0 O3' A:GF214 4.4 0.0 1.0 P A:DG16 4.4 0.0 1.0 C2' A:DG16 4.6 0.0 1.0 O4' A:DG16 4.6 0.0 1.0 C1' A:DG16 4.7 0.0 1.0 N3 A:GF214 4.7 0.0 1.0 OP2 A:DG16 4.8 0.0 1.0 P A:GFL15 4.8 0.0 1.0 C1' A:GF214 4.8 0.0 1.0 C2 A:GFL15 4.9 0.0 1.0 C5 A:DG16 4.9 0.0 1.0

L.Haase, K.Weisz. Switching the Type of V-Loop in Sugar-Modified G-Quadruplexes Through Altered Fluorine Interactions Chem.Commun.(Camb.) 2020.
ISSN: ESSN 1364-548X
DOI: 10.1039/D0CC01285H