Fluorine in PDB 8qor: Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Fluorine atom in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions (pdb code 8qor). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 12 binding sites of Fluorine where determined in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions, PDB code: 8qor:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F1 b:0.0 occ:1.00 F A:CFL1 0.0 0.0 1.0 C2' A:CFL1 1.4 0.0 1.0 H2' A:CFL1 2.0 0.0 1.0 C3' A:CFL1 2.4 0.0 1.0 H3' A:CFL1 2.4 0.0 1.0 C1' A:CFL1 2.4 0.0 1.0 N1 A:CFL1 2.8 0.0 1.0 O4' A:CFL1 2.9 0.0 1.0 HO5' A:CFL1 3.1 0.0 1.0 C4' A:CFL1 3.2 0.0 1.0 H1' A:CFL1 3.3 0.0 1.0 C2 A:CFL1 3.4 0.0 1.0 C6 A:CFL1 3.4 0.0 1.0 O3' A:CFL1 3.5 0.0 1.0 O5' A:CFL1 3.6 0.0 1.0 H6 A:CFL1 3.7 0.0 1.0 O2 A:CFL1 3.7 0.0 1.0 C5' A:CFL1 3.9 0.0 1.0 H4' A:CFL1 4.1 0.0 1.0 C5 A:CFL1 4.4 0.0 1.0 N3 A:CFL1 4.4 0.0 1.0 H5'2 A:CFL1 4.6 0.0 1.0 H5'1 A:CFL1 4.8 0.0 1.0 C4 A:CFL1 4.8 0.0 1.0 OP1 A:GF22 4.8 0.0 1.0 P A:GF22 4.9 0.0 1.0

Fluorine binding site 2 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F2 b:0.0 occ:1.00 F A:GF22 0.0 0.0 1.0 C2' A:GF22 1.4 0.0 1.0 H2' A:GF22 2.0 0.0 1.0 H1' A:GF22 2.3 0.0 1.0 C1' A:GF22 2.3 0.0 1.0 C3' A:GF22 2.4 0.0 1.0 O3' A:GF22 2.6 0.0 1.0 C4' A:GF22 3.3 0.0 1.0 O4' A:GF22 3.3 0.0 1.0 H3' A:GF22 3.3 0.0 1.0 H4' A:GF22 3.4 0.0 1.0 N9 A:GF22 3.5 0.0 1.0 H6 A:CFL3 3.6 0.0 1.0 H5'1 A:CFL3 3.8 0.0 1.0 P A:CFL3 4.2 0.0 1.0 N7 A:GF24 4.3 0.0 1.0 C8 A:GF22 4.4 0.0 1.0 O6 A:GF24 4.4 0.0 1.0 C4 A:GF22 4.4 0.0 1.0 O5' A:CFL3 4.4 0.0 1.0 H8 A:GF22 4.4 0.0 1.0 C6 A:CFL3 4.5 0.0 1.0 N3 A:GF22 4.6 0.0 1.0 C5' A:CFL3 4.6 0.0 1.0 C5 A:GF24 4.6 0.0 1.0 H5 A:CFL3 4.6 0.0 1.0 C6 A:GF24 4.6 0.0 1.0 O4' A:CFL3 4.7 0.0 1.0 C5' A:GF22 4.7 0.0 1.0 O1P A:CFL3 4.8 0.0 1.0 C5 A:CFL3 5.0 0.0 1.0 H5'A A:GF22 5.0 0.0 1.0

Fluorine binding site 3 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F3 b:0.0 occ:1.00 F A:CFL3 0.0 0.0 1.0 C2' A:CFL3 1.4 0.0 1.0 H2' A:CFL3 2.0 0.0 1.0 HN2A A:GF22 2.3 0.0 1.0 C1' A:CFL3 2.4 0.0 1.0 C3' A:CFL3 2.4 0.0 1.0 H3' A:CFL3 2.5 0.0 1.0 N1 A:CFL3 2.8 0.0 1.0 O4' A:CFL3 3.0 0.0 1.0 N2 A:GF22 3.1 0.0 1.0 O5' A:CFL3 3.1 0.0 1.0 C4' A:CFL3 3.1 0.0 1.0 H1' A:CFL3 3.3 0.0 1.0 C2 A:CFL3 3.3 0.0 1.0 H3' A:GF22 3.4 0.0 1.0 O2 A:CFL3 3.5 0.0 1.0 HN2 A:GF22 3.5 0.0 1.0 O3' A:CFL3 3.6 0.0 1.0 C6 A:CFL3 3.7 0.0 1.0 C5' A:CFL3 3.7 0.0 1.0 C2 A:GF22 3.9 0.0 1.0 N3 A:GF22 3.9 0.0 1.0 H6 A:CFL3 3.9 0.0 1.0 H4' A:CFL3 4.1 0.0 1.0 C3' A:GF22 4.4 0.0 1.0 P A:CFL3 4.4 0.0 1.0 H2' A:GF22 4.4 0.0 1.0 N3 A:CFL3 4.4 0.0 1.0 H5'1 A:CFL3 4.4 0.0 1.0 O3P A:CFL3 4.4 0.0 1.0 O2 B:CFL11 4.4 0.0 1.0 H5'2 A:CFL3 4.4 0.0 1.0 H5'A A:GF22 4.6 0.0 1.0 C5 A:CFL3 4.7 0.0 1.0 O3' A:GF22 4.8 0.0 1.0 HN2 B:GF210 4.8 0.0 1.0 OP1 A:GF24 4.8 0.0 1.0 P A:GF24 4.9 0.0 1.0 C4 A:CFL3 4.9 0.0 1.0 C2' A:GF22 5.0 0.0 1.0

Fluorine binding site 4 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F4 b:0.0 occ:1.00 F A:GF24 0.0 0.0 1.0 C2' A:GF24 1.4 0.0 1.0 H2' A:GF24 2.0 0.0 1.0 H1' A:GF24 2.3 0.0 1.0 C1' A:GF24 2.3 0.0 1.0 C3' A:GF24 2.5 0.0 1.0 O3' A:GF24 2.6 0.0 1.0 H3' A:GF24 3.3 0.0 1.0 O4' A:GF24 3.3 0.0 1.0 C4' A:GF24 3.3 0.0 1.0 N9 A:GF24 3.4 0.0 1.0 H4' A:GF24 3.5 0.0 1.0 H6 A:CFL5 4.0 0.0 1.0 H8 A:GF24 4.1 0.0 1.0 C8 A:GF24 4.2 0.0 1.0 P A:CFL5 4.2 0.0 1.0 C4 A:GF24 4.4 0.0 1.0 H5 A:CFL5 4.5 0.0 1.0 O1P A:CFL5 4.7 0.0 1.0 N3 A:GF24 4.7 0.0 1.0 C5' A:GF24 4.7 0.0 1.0 C6 A:CFL5 4.9 0.0 1.0 O3P A:CFL5 4.9 0.0 1.0 O5' A:CFL5 4.9 0.0 1.0

Fluorine binding site 5 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F5 b:0.0 occ:1.00 F A:CFL5 0.0 0.0 1.0 C2' A:CFL5 1.4 0.0 1.0 HN2A A:GF24 1.8 0.0 1.0 H2' A:CFL5 2.0 0.0 1.0 C3' A:CFL5 2.4 0.0 1.0 H3' A:CFL5 2.4 0.0 1.0 C1' A:CFL5 2.4 0.0 1.0 H3' A:GF24 2.7 0.0 1.0 N2 A:GF24 2.7 0.0 1.0 O4' A:CFL5 2.9 0.0 1.0 H5'A A:GF24 2.9 0.0 1.0 N1 A:CFL5 2.9 0.0 1.0 C4' A:CFL5 3.0 0.0 1.0 O5' A:CFL5 3.2 0.0 1.0 H6 A:CFL5 3.3 0.0 1.0 H1' A:CFL5 3.3 0.0 1.0 HN2 A:GF24 3.3 0.0 1.0 C6 A:CFL5 3.3 0.0 1.0 N3 A:GF24 3.4 0.0 1.0 H5' A:GF24 3.4 0.0 1.0 C2 A:GF24 3.5 0.0 1.0 O3' A:CFL5 3.5 0.0 1.0 C5' A:GF24 3.6 0.0 1.0 C5' A:CFL5 3.7 0.0 1.0 C3' A:GF24 3.7 0.0 1.0 C2 A:CFL5 3.8 0.0 1.0 H4' A:CFL5 4.0 0.0 1.0 O2 A:CFL5 4.1 0.0 1.0 C4' A:GF24 4.3 0.0 1.0 C5 A:CFL5 4.3 0.0 1.0 H5'1 A:CFL5 4.4 0.0 1.0 O3' A:GF24 4.4 0.0 1.0 H2' A:GF24 4.4 0.0 1.0 P A:CFL5 4.4 0.0 1.0 H5'2 A:CFL5 4.5 0.0 1.0 O2 B:CFL9 4.5 0.0 1.0 H4' A:CFL3 4.6 0.0 1.0 C4 A:GF24 4.7 0.0 1.0 C2' A:GF24 4.7 0.0 1.0 N3 A:CFL5 4.7 0.0 1.0 H1' A:CFL3 4.7 0.0 1.0 N1 A:GF24 4.8 0.0 1.0 O5' A:GF24 4.8 0.0 1.0 O3P A:CFL5 4.8 0.0 1.0 OP1 A:GF26 4.8 0.0 1.0 P A:GF26 4.9 0.0 1.0 OP2 A:GF24 4.9 0.0 1.0 C4 A:CFL5 4.9 0.0 1.0 O3' A:CFL3 4.9 0.0 1.0 H5 A:CFL5 5.0 0.0 1.0

Fluorine binding site 6 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:F6 b:0.0 occ:1.00 F A:GF26 0.0 0.0 1.0 C2' A:GF26 1.4 0.0 1.0 H2' A:GF26 2.0 0.0 1.0 HO3' A:GF26 2.1 0.0 1.0 H1' A:GF26 2.4 0.0 1.0 C1' A:GF26 2.4 0.0 1.0 C3' A:GF26 2.4 0.0 1.0 O3' A:GF26 2.6 0.0 1.0 H3' A:GF26 3.1 0.0 1.0 N9 A:GF26 3.4 0.0 1.0 O4' A:GF26 3.4 0.0 1.0 C4' A:GF26 3.5 0.0 1.0 H4' A:GF26 3.8 0.0 1.0 C4 A:GF26 4.2 0.0 1.0 C8 A:GF26 4.3 0.0 1.0 H8 A:GF26 4.4 0.0 1.0 N3 A:GF26 4.4 0.0 1.0 C5' A:GF26 4.8 0.0 1.0 H5'A A:GF26 4.9 0.0 1.0

Fluorine binding site 7 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ B:F7 b:0.0 occ:1.00 F B:CFL7 0.0 0.0 1.0 C2' B:CFL7 1.4 0.0 1.0 H2' B:CFL7 2.0 0.0 1.0 C3' B:CFL7 2.4 0.0 1.0 H3' B:CFL7 2.4 0.0 1.0 C1' B:CFL7 2.4 0.0 1.0 N1 B:CFL7 2.8 0.0 1.0 O4' B:CFL7 2.9 0.0 1.0 HO5' B:CFL7 3.0 0.0 1.0 C4' B:CFL7 3.2 0.0 1.0 H1' B:CFL7 3.3 0.0 1.0 C2 B:CFL7 3.4 0.0 1.0 C6 B:CFL7 3.4 0.0 1.0 O5' B:CFL7 3.5 0.0 1.0 O3' B:CFL7 3.5 0.0 1.0 O2 B:CFL7 3.7 0.0 1.0 H6 B:CFL7 3.7 0.0 1.0 C5' B:CFL7 3.9 0.0 1.0 H4' B:CFL7 4.1 0.0 1.0 N3 B:CFL7 4.4 0.0 1.0 C5 B:CFL7 4.4 0.0 1.0 H5'2 B:CFL7 4.5 0.0 1.0 H5'1 B:CFL7 4.7 0.0 1.0 C4 B:CFL7 4.8 0.0 1.0 OP1 B:GF28 4.8 0.0 1.0 P B:GF28 4.9 0.0 1.0

Fluorine binding site 8 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ B:F8 b:0.0 occ:1.00 F B:GF28 0.0 0.0 1.0 C2' B:GF28 1.4 0.0 1.0 H2' B:GF28 2.0 0.0 1.0 H1' B:GF28 2.3 0.0 1.0 C1' B:GF28 2.3 0.0 1.0 C3' B:GF28 2.4 0.0 1.0 O3' B:GF28 2.6 0.0 1.0 H3' B:GF28 3.3 0.0 1.0 O4' B:GF28 3.3 0.0 1.0 C4' B:GF28 3.3 0.0 1.0 H4' B:GF28 3.4 0.0 1.0 N9 B:GF28 3.5 0.0 1.0 H6 B:CFL9 3.5 0.0 1.0 H5'1 B:CFL9 3.9 0.0 1.0 P B:CFL9 4.2 0.0 1.0 N7 B:GF210 4.2 0.0 1.0 O6 B:GF210 4.3 0.0 1.0 C8 B:GF28 4.3 0.0 1.0 H8 B:GF28 4.4 0.0 1.0 C4 B:GF28 4.4 0.0 1.0 C6 B:CFL9 4.4 0.0 1.0 O5' B:CFL9 4.5 0.0 1.0 C5 B:GF210 4.5 0.0 1.0 C6 B:GF210 4.5 0.0 1.0 H5 B:CFL9 4.6 0.0 1.0 N3 B:GF28 4.6 0.0 1.0 O4' B:CFL9 4.7 0.0 1.0 C5' B:CFL9 4.7 0.0 1.0 O1P B:CFL9 4.7 0.0 1.0 C5' B:GF28 4.7 0.0 1.0 C5 B:CFL9 4.9 0.0 1.0 H5'A B:GF28 5.0 0.0 1.0 C8 B:GF210 5.0 0.0 1.0

Fluorine binding site 9 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ B:F9 b:0.0 occ:1.00 F B:CFL9 0.0 0.0 1.0 C2' B:CFL9 1.4 0.0 1.0 H2' B:CFL9 2.0 0.0 1.0 HN2A B:GF28 2.2 0.0 1.0 C3' B:CFL9 2.4 0.0 1.0 C1' B:CFL9 2.4 0.0 1.0 H3' B:CFL9 2.4 0.0 1.0 N1 B:CFL9 2.8 0.0 1.0 O4' B:CFL9 3.0 0.0 1.0 N2 B:GF28 3.0 0.0 1.0 C4' B:CFL9 3.1 0.0 1.0 O5' B:CFL9 3.2 0.0 1.0 H3' B:GF28 3.3 0.0 1.0 H1' B:CFL9 3.3 0.0 1.0 C2 B:CFL9 3.3 0.0 1.0 HN2 B:GF28 3.4 0.0 1.0 O2 B:CFL9 3.4 0.0 1.0 O3' B:CFL9 3.6 0.0 1.0 C6 B:CFL9 3.7 0.0 1.0 C5' B:CFL9 3.7 0.0 1.0 C2 B:GF28 3.8 0.0 1.0 N3 B:GF28 3.9 0.0 1.0 H6 B:CFL9 4.0 0.0 1.0 H4' B:CFL9 4.1 0.0 1.0 O2 A:CFL5 4.3 0.0 1.0 C3' B:GF28 4.4 0.0 1.0 H2' B:GF28 4.4 0.0 1.0 H5'A B:GF28 4.4 0.0 1.0 N3 B:CFL9 4.4 0.0 1.0 H5'1 B:CFL9 4.5 0.0 1.0 P B:CFL9 4.5 0.0 1.0 H5'2 B:CFL9 4.5 0.0 1.0 O3P B:CFL9 4.6 0.0 1.0 C5 B:CFL9 4.7 0.0 1.0 O3' B:GF28 4.8 0.0 1.0 HN2 A:GF24 4.8 0.0 1.0 P B:GF210 4.9 0.0 1.0 C4 B:CFL9 5.0 0.0 1.0 C2' B:GF28 5.0 0.0 1.0 OP1 B:GF210 5.0 0.0 1.0 H2' A:CFL5 5.0 0.0 1.0 N1 B:GF28 5.0 0.0 1.0

Fluorine binding site 10 out of 12 in the Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions within 5.0Å range: probe atom residue distance (Å) B Occ B:F10 b:0.0 occ:1.00 F B:GF210 0.0 0.0 1.0 C2' B:GF210 1.4 0.0 1.0 H2' B:GF210 2.0 0.0 1.0 H1' B:GF210 2.3 0.0 1.0 C1' B:GF210 2.3 0.0 1.0 C3' B:GF210 2.4 0.0 1.0 O3' B:GF210 2.7 0.0 1.0 H4' B:GF210 3.1 0.0 1.0 C4' B:GF210 3.2 0.0 1.0 H3' B:GF210 3.3 0.0 1.0 O4' B:GF210 3.3 0.0 1.0 N9 B:GF210 3.4 0.0 1.0 H6 B:CFL11 3.7 0.0 1.0 P B:CFL11 4.0 0.0 1.0 O5' B:CFL11 4.1 0.0 1.0 H8 B:GF210 4.2 0.0 1.0 C8 B:GF210 4.2 0.0 1.0 C4 B:GF210 4.3 0.0 1.0 H5'1 B:CFL11 4.4 0.0 1.0 N3 B:GF210 4.5 0.0 1.0 O1P B:CFL11 4.6 0.0 1.0 H5 B:CFL11 4.7 0.0 1.0 C5' B:GF210 4.7 0.0 1.0 C6 B:CFL11 4.7 0.0 1.0 C5' B:CFL11 4.8 0.0 1.0 N7 B:GF212 5.0 0.0 1.0

R.El-Khoury, C.Cabrero, S.Movilla, H.Kaur, D.Friedland, A.Dominguez, J.D.Thorpe, M.Roman, M.Orozco, C.Gonzalez, M.J.Damha. Formation of Left-Handed Helices By C2'-Fluorinated Nucleic Acids Under Physiological Salt Conditions. Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962
PubMed: 38874502
DOI: 10.1093/NAR/GKAE508