Fluorine in PDB 6rs3: 2'-F-Riboguanosine Modified G-Quadruplex with V-Loop

The binding sites of Fluorine atom in the 2'-F-Riboguanosine Modified G-Quadruplex with V-Loop (pdb code 6rs3). 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 Modified G-Quadruplex with V-Loop, PDB code: 6rs3:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in the 2'-F-Riboguanosine Modified G-Quadruplex with V-Loop


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 Modified G-Quadruplex with V-Loop 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 H1' A:GF214 2.4 0.0 1.0 C1' A:GF214 2.4 0.0 1.0 C3' A:GF214 2.4 0.0 1.0 O3' A:GF214 2.7 0.0 1.0 H5'' A:DG1 2.8 0.0 1.0 H4' A:GF214 2.9 0.0 1.0 C4' A:GF214 3.0 0.0 1.0 H5' A:GF215 3.2 0.0 1.0 O4' A:GF214 3.2 0.0 1.0 H3' A:GF214 3.3 0.0 1.0 O5' A:DG1 3.3 0.0 1.0 C5' A:DG1 3.4 0.0 1.0 N9 A:GF214 3.5 0.0 1.0 H5' A:DG1 3.6 0.0 1.0 HO5' A:DG1 3.9 0.0 1.0 H22 A:DG1 4.0 0.0 1.0 P A:GF215 4.1 0.0 1.0 C5' A:GF215 4.1 0.0 1.0 O5' A:GF215 4.2 0.0 1.0 C4 A:GF214 4.4 0.0 1.0 C8 A:GF214 4.4 0.0 1.0 C5' A:GF214 4.5 0.0 1.0 H8 A:GF214 4.5 0.0 1.0 H5'A A:GF215 4.6 0.0 1.0 N3 A:GF214 4.6 0.0 1.0 H5' A:GF214 4.8 0.0 1.0 N2 A:DG1 4.8 0.0 1.0 C4' A:DG1 4.8 0.0 1.0 OP1 A:GF215 4.9 0.0 1.0 H5'A A:GF214 5.0 0.0 1.0

Fluorine binding site 2 out of 2 in the 2'-F-Riboguanosine Modified G-Quadruplex with V-Loop


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 Modified G-Quadruplex with V-Loop within 5.0Å range: probe atom residue distance (Å) B Occ A:F15 b:0.0 occ:1.00 F A:GF215 0.0 0.0 1.0 C2' A:GF215 1.4 0.0 1.0 H2' A:GF215 2.0 0.0 1.0 H1' A:GF215 2.3 0.0 1.0 C1' A:GF215 2.4 0.0 1.0 C3' A:GF215 2.4 0.0 1.0 O3' A:GF215 2.8 0.0 1.0 H4' A:GF215 3.0 0.0 1.0 OP1 A:DG16 3.0 0.0 1.0 C4' A:GF215 3.1 0.0 1.0 H3' A:GF215 3.3 0.0 1.0 O4' A:GF215 3.4 0.0 1.0 N9 A:GF215 3.4 0.0 1.0 P A:DG16 3.5 0.0 1.0 H8 A:GF215 3.8 0.0 1.0 H5' A:DG16 3.8 0.0 1.0 C8 A:GF215 4.0 0.0 1.0 O5' A:DG16 4.3 0.0 1.0 C5' A:DG16 4.5 0.0 1.0 C4 A:GF215 4.5 0.0 1.0 C5' A:GF215 4.6 0.0 1.0 O4' A:DG16 4.6 0.0 1.0 OP2 A:DG16 4.7 0.0 1.0 H5'A A:GF215 4.8 0.0 1.0

L.Haase, J.Dickerhoff, K.Weisz. Sugar Puckering Drives G-Quadruplex Refolding: Implications For V-Shaped Loops. Chemistry 2019.
ISSN: ISSN 0947-6539
PubMed: 31609483
DOI: 10.1002/CHEM.201904044