Fluorine in PDB 2lsc: Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex

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>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Fluorine atom in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex (pdb code 2lsc). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 16 binding sites of Fluorine where determined in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex, PDB code: 2lsc:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


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Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex 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 C1' A:CFL1 2.4 0.0 1.0 H3' A:CFL1 2.4 0.0 1.0 H6 A:CFL1 2.7 0.0 1.0 H8 A:GFL2 2.7 0.0 1.0 HO5' A:CFL1 2.7 0.0 1.0 N1 A:CFL1 2.8 0.0 1.0 C6 A:CFL1 3.0 0.0 1.0 O4' A:CFL1 3.0 0.0 1.0 C4' A:CFL1 3.1 0.0 1.0 H1' A:CFL1 3.3 0.0 1.0 O5' A:CFL1 3.4 0.0 1.0 C8 A:GFL2 3.5 0.0 1.0 O3' A:CFL1 3.6 0.0 1.0 C5' A:CFL1 3.7 0.0 1.0 C2 A:CFL1 3.9 0.0 1.0 N7 A:GFL2 4.1 0.0 1.0 H4' A:CFL1 4.1 0.0 1.0 C5 A:CFL1 4.1 0.0 1.0 O5' A:GFL2 4.1 0.0 1.0 H5'1 A:CFL1 4.2 0.0 1.0 F A:GFL2 4.2 0.0 1.0 P A:GFL2 4.4 0.0 1.0 O2 A:CFL1 4.4 0.0 1.0 O2P A:GFL2 4.4 0.0 1.0 N9 A:GFL2 4.6 0.0 1.0 H5'2 A:CFL1 4.6 0.0 1.0 H5 A:CFL1 4.6 0.0 1.0 O4' A:GFL2 4.7 0.0 1.0 N3 A:CFL1 4.8 0.0 1.0 C4 A:CFL1 4.9 0.0 1.0

Fluorine binding site 2 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


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 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F2 b:0.0 occ:1.00 F A:GFL2 0.0 0.0 1.0 C2' A:GFL2 1.4 0.0 1.0 H2' A:GFL2 2.0 0.0 1.0 H8 A:GFL2 2.3 0.0 1.0 C3' A:GFL2 2.4 0.0 1.0 H3' A:GFL2 2.4 0.0 1.0 C1' A:GFL2 2.4 0.0 1.0 N9 A:GFL2 2.8 0.0 1.0 C8 A:GFL2 2.8 0.0 1.0 O4' A:GFL2 3.0 0.0 1.0 C4' A:GFL2 3.1 0.0 1.0 H1' A:GFL2 3.3 0.0 1.0 H5 A:CFL3 3.3 0.0 1.0 O5' A:GFL2 3.5 0.0 1.0 H2' A:CFL1 3.5 0.0 1.0 O2P A:CFL3 3.6 0.0 1.0 O3' A:GFL2 3.6 0.0 1.0 C5' A:GFL2 3.9 0.0 1.0 H6 A:CFL3 3.9 0.0 1.0 N7 A:GFL2 4.0 0.0 1.0 C5 A:CFL3 4.0 0.0 1.0 H4' A:GFL2 4.1 0.0 1.0 C4 A:GFL2 4.1 0.0 1.0 P A:CFL3 4.2 0.0 1.0 F A:CFL1 4.2 0.0 1.0 C6 A:CFL3 4.3 0.0 1.0 C2' A:CFL1 4.3 0.0 1.0 H5'1 A:GFL2 4.6 0.0 1.0 H5'2 A:GFL2 4.6 0.0 1.0 C5 A:GFL2 4.7 0.0 1.0 O5' A:CFL3 4.7 0.0 1.0 P A:GFL2 4.9 0.0 1.0 N3 A:GFL2 5.0 0.0 1.0

Fluorine binding site 3 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex 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 H6 A:CFL3 2.3 0.0 1.0 C3' A:CFL3 2.4 0.0 1.0 H3' A:CFL3 2.4 0.0 1.0 C1' A:CFL3 2.5 0.0 1.0 C6 A:CFL3 2.8 0.0 1.0 O5' A:CFL3 2.9 0.0 1.0 N1 A:CFL3 2.9 0.0 1.0 C4' A:CFL3 3.1 0.0 1.0 O4' A:CFL3 3.1 0.0 1.0 H1' A:CFL3 3.3 0.0 1.0 H8 A:GFL4 3.4 0.0 1.0 C5' A:CFL3 3.4 0.0 1.0 O3' A:CFL3 3.6 0.0 1.0 H5'1 A:CFL3 3.9 0.0 1.0 O2P A:GFL4 4.0 0.0 1.0 C5 A:CFL3 4.0 0.0 1.0 C8 A:GFL4 4.0 0.0 1.0 H4' A:CFL3 4.1 0.0 1.0 P A:CFL3 4.1 0.0 1.0 C2 A:CFL3 4.2 0.0 1.0 O2P A:CFL3 4.2 0.0 1.0 H2' A:GFL2 4.2 0.0 1.0 N7 A:GFL4 4.3 0.0 1.0 P A:GFL4 4.3 0.0 1.0 H5'2 A:CFL3 4.3 0.0 1.0 H5 A:CFL3 4.5 0.0 1.0 O5' A:GFL4 4.5 0.0 1.0 O2 A:CFL3 4.8 0.0 1.0 O1P A:CFL3 5.0 0.0 1.0 C4 A:CFL3 5.0 0.0 1.0

Fluorine binding site 4 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F4 b:0.0 occ:1.00 F A:GFL4 0.0 0.0 1.0 C2' A:GFL4 1.4 0.0 1.0 H2' A:GFL4 2.0 0.0 1.0 H8 A:GFL4 2.4 0.0 1.0 C3' A:GFL4 2.4 0.0 1.0 C1' A:GFL4 2.4 0.0 1.0 H3' A:GFL4 2.4 0.0 1.0 N9 A:GFL4 2.8 0.0 1.0 C8 A:GFL4 2.8 0.0 1.0 O4' A:GFL4 3.0 0.0 1.0 C4' A:GFL4 3.1 0.0 1.0 O5' A:GFL4 3.2 0.0 1.0 H1' A:GFL4 3.3 0.0 1.0 H8 A:A5O5 3.4 0.0 1.0 O3' A:GFL4 3.6 0.0 1.0 H2' A:CFL3 3.7 0.0 1.0 C5' A:GFL4 3.7 0.0 1.0 OP2 A:A5O5 4.0 0.0 1.0 N7 A:GFL4 4.0 0.0 1.0 C4 A:GFL4 4.0 0.0 1.0 H4' A:GFL4 4.1 0.0 1.0 H5'1 A:GFL4 4.3 0.0 1.0 C8 A:A5O5 4.3 0.0 1.0 P A:A5O5 4.3 0.0 1.0 O5' A:A5O5 4.4 0.0 1.0 H5'2 A:GFL4 4.5 0.0 1.0 P A:GFL4 4.5 0.0 1.0 O2P A:GFL4 4.5 0.0 1.0 C5 A:GFL4 4.6 0.0 1.0 C2' A:CFL3 4.7 0.0 1.0 N7 A:A5O5 4.8 0.0 1.0 O4' A:A5O5 4.8 0.0 1.0 N3 A:GFL4 4.9 0.0 1.0 H5'A A:A5O5 4.9 0.0 1.0 H1' A:CFL3 5.0 0.0 1.0

Fluorine binding site 5 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F9 b:0.0 occ:1.00 F A:CFL9 0.0 0.0 1.0 C2' A:CFL9 1.4 0.0 1.0 H2' A:CFL9 2.0 0.0 1.0 H6 A:CFL9 2.3 0.0 1.0 C3' A:CFL9 2.4 0.0 1.0 C1' A:CFL9 2.4 0.0 1.0 H3' A:CFL9 2.5 0.0 1.0 O4' A:CFL9 2.9 0.0 1.0 C6 A:CFL9 2.9 0.0 1.0 O5' A:CFL9 3.0 0.0 1.0 N1 A:CFL9 3.0 0.0 1.0 C4' A:CFL9 3.1 0.0 1.0 H2' A:UAR8 3.1 0.0 1.0 H1' A:CFL9 3.3 0.0 1.0 C5' A:CFL9 3.6 0.0 1.0 O3' A:CFL9 3.6 0.0 1.0 H4' A:CFL9 4.1 0.0 1.0 C2' A:UAR8 4.1 0.0 1.0 C5 A:CFL9 4.1 0.0 1.0 H5'1 A:CFL9 4.3 0.0 1.0 P A:CFL9 4.3 0.0 1.0 H5'2 A:CFL9 4.3 0.0 1.0 C2 A:CFL9 4.4 0.0 1.0 O2' A:UAR8 4.4 0.0 1.0 O2P A:CFL9 4.4 0.0 1.0 H5 A:CFL9 4.5 0.0 1.0 H8 A:GFL10 4.6 0.0 1.0 N7 A:GFL10 4.6 0.0 1.0 O3' A:UAR8 4.9 0.0 1.0 H1' A:UAR8 4.9 0.0 1.0 P A:GFL10 5.0 0.0 1.0

Fluorine binding site 6 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F10 b:0.0 occ:1.00 F A:GFL10 0.0 0.0 1.0 C2' A:GFL10 1.4 0.0 1.0 H2' A:GFL10 2.0 0.0 1.0 C3' A:GFL10 2.4 0.0 1.0 H8 A:GFL10 2.4 0.0 1.0 H3' A:GFL10 2.4 0.0 1.0 C1' A:GFL10 2.4 0.0 1.0 N9 A:GFL10 2.8 0.0 1.0 C8 A:GFL10 2.8 0.0 1.0 O5' A:GFL10 2.8 0.0 1.0 H5 A:CFL11 3.1 0.0 1.0 C4' A:GFL10 3.1 0.0 1.0 O4' A:GFL10 3.2 0.0 1.0 H1' A:GFL10 3.3 0.0 1.0 H6 A:CFL11 3.5 0.0 1.0 C5' A:GFL10 3.5 0.0 1.0 O3' A:GFL10 3.6 0.0 1.0 O2P A:CFL11 3.7 0.0 1.0 C5 A:CFL11 3.8 0.0 1.0 N7 A:GFL10 3.9 0.0 1.0 C6 A:CFL11 3.9 0.0 1.0 C4 A:GFL10 4.0 0.0 1.0 P A:GFL10 4.1 0.0 1.0 O3' A:CFL9 4.1 0.0 1.0 H4' A:GFL10 4.1 0.0 1.0 H5'1 A:GFL10 4.2 0.0 1.0 P A:CFL11 4.2 0.0 1.0 H5'2 A:GFL10 4.2 0.0 1.0 O2P A:GFL10 4.4 0.0 1.0 O5' A:CFL11 4.4 0.0 1.0 C5 A:GFL10 4.5 0.0 1.0 H2' A:CFL9 4.8 0.0 1.0 N3 A:GFL10 4.9 0.0 1.0 C4 A:CFL11 5.0 0.0 1.0 HN42 A:CFL11 5.0 0.0 1.0

Fluorine binding site 7 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F11 b:0.0 occ:1.00 F A:CFL11 0.0 0.0 1.0 C2' A:CFL11 1.4 0.0 1.0 H2' A:CFL11 2.0 0.0 1.0 H3' A:CFL11 2.4 0.0 1.0 C3' A:CFL11 2.4 0.0 1.0 C1' A:CFL11 2.4 0.0 1.0 H6 A:CFL11 2.6 0.0 1.0 N1 A:CFL11 2.8 0.0 1.0 H8 A:GFL12 2.8 0.0 1.0 C6 A:CFL11 2.9 0.0 1.0 O4' A:CFL11 3.1 0.0 1.0 C4' A:CFL11 3.2 0.0 1.0 H1' A:CFL11 3.3 0.0 1.0 O5' A:CFL11 3.4 0.0 1.0 O3' A:CFL11 3.5 0.0 1.0 C8 A:GFL12 3.6 0.0 1.0 O2P A:GFL12 3.8 0.0 1.0 N7 A:GFL12 3.9 0.0 1.0 C5' A:CFL11 3.9 0.0 1.0 C2 A:CFL11 3.9 0.0 1.0 C5 A:CFL11 4.1 0.0 1.0 P A:GFL12 4.1 0.0 1.0 H4' A:CFL11 4.2 0.0 1.0 H2' A:GFL10 4.2 0.0 1.0 O5' A:GFL12 4.2 0.0 1.0 O2 A:CFL11 4.4 0.0 1.0 H5'1 A:CFL11 4.5 0.0 1.0 H5 A:CFL11 4.6 0.0 1.0 N9 A:GFL12 4.7 0.0 1.0 H5'2 A:CFL11 4.7 0.0 1.0 P A:CFL11 4.8 0.0 1.0 O4' A:GFL12 4.8 0.0 1.0 O2P A:CFL11 4.8 0.0 1.0 N3 A:CFL11 4.8 0.0 1.0 C4 A:CFL11 4.9 0.0 1.0 F A:GFL12 4.9 0.0 1.0

Fluorine binding site 8 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ A:F12 b:0.0 occ:1.00 F A:GFL12 0.0 0.0 1.0 C2' A:GFL12 1.4 0.0 1.0 H2' A:GFL12 2.0 0.0 1.0 H3' A:GFL12 2.4 0.0 1.0 C3' A:GFL12 2.4 0.0 1.0 C1' A:GFL12 2.4 0.0 1.0 H8 A:GFL12 2.5 0.0 1.0 N9 A:GFL12 2.8 0.0 1.0 C8 A:GFL12 2.9 0.0 1.0 O4' A:GFL12 3.0 0.0 1.0 C4' A:GFL12 3.2 0.0 1.0 H1' A:GFL12 3.3 0.0 1.0 O5' A:GFL12 3.3 0.0 1.0 O3' A:GFL12 3.6 0.0 1.0 H2' A:CFL11 3.7 0.0 1.0 C5' A:GFL12 3.8 0.0 1.0 HO3' A:GFL12 4.0 0.0 1.0 C4 A:GFL12 4.0 0.0 1.0 N7 A:GFL12 4.0 0.0 1.0 H4' A:GFL12 4.1 0.0 1.0 H5'1 A:GFL12 4.4 0.0 1.0 C5 A:GFL12 4.6 0.0 1.0 H5'2 A:GFL12 4.6 0.0 1.0 P A:GFL12 4.7 0.0 1.0 O2P A:GFL12 4.7 0.0 1.0 C2' A:CFL11 4.7 0.0 1.0 N3 A:GFL12 4.8 0.0 1.0 F A:CFL11 4.9 0.0 1.0

Fluorine binding site 9 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ B:F13 b:0.0 occ:1.00 F B:CFL13 0.0 0.0 1.0 C2' B:CFL13 1.4 0.0 1.0 H2' B:CFL13 2.0 0.0 1.0 H3' B:CFL13 2.4 0.0 1.0 C3' B:CFL13 2.4 0.0 1.0 C1' B:CFL13 2.4 0.0 1.0 H6 B:CFL13 2.6 0.0 1.0 H8 B:GFL14 2.6 0.0 1.0 N1 B:CFL13 2.8 0.0 1.0 C6 B:CFL13 2.9 0.0 1.0 O4' B:CFL13 3.0 0.0 1.0 C4' B:CFL13 3.2 0.0 1.0 H1' B:CFL13 3.3 0.0 1.0 C8 B:GFL14 3.4 0.0 1.0 O5' B:CFL13 3.4 0.0 1.0 O3' B:CFL13 3.6 0.0 1.0 HO5' B:CFL13 3.6 0.0 1.0 N7 B:GFL14 3.8 0.0 1.0 C5' B:CFL13 3.9 0.0 1.0 C2 B:CFL13 3.9 0.0 1.0 O2P B:GFL14 4.0 0.0 1.0 C5 B:CFL13 4.0 0.0 1.0 O5' B:GFL14 4.1 0.0 1.0 H4' B:CFL13 4.1 0.0 1.0 P B:GFL14 4.2 0.0 1.0 F B:GFL14 4.3 0.0 1.0 O2 B:CFL13 4.4 0.0 1.0 H5'1 B:CFL13 4.4 0.0 1.0 N9 B:GFL14 4.5 0.0 1.0 H5 B:CFL13 4.6 0.0 1.0 O4' B:GFL14 4.7 0.0 1.0 H5'2 B:CFL13 4.7 0.0 1.0 N3 B:CFL13 4.8 0.0 1.0 C4 B:CFL13 4.9 0.0 1.0 H5'2 B:GFL14 4.9 0.0 1.0 C5' B:GFL14 5.0 0.0 1.0

Fluorine binding site 10 out of 16 in the Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Solution Structure of 2'F-Ana and Ana Self-Complementary Duplex within 5.0Å range: probe atom residue distance (Å) B Occ B:F14 b:0.0 occ:1.00 F B:GFL14 0.0 0.0 1.0 C2' B:GFL14 1.4 0.0 1.0 H2' B:GFL14 2.0 0.0 1.0 H8 B:GFL14 2.4 0.0 1.0 C3' B:GFL14 2.4 0.0 1.0 C1' B:GFL14 2.4 0.0 1.0 H3' B:GFL14 2.4 0.0 1.0 N9 B:GFL14 2.8 0.0 1.0 C8 B:GFL14 2.8 0.0 1.0 O4' B:GFL14 3.0 0.0 1.0 C4' B:GFL14 3.1 0.0 1.0 O5' B:GFL14 3.2 0.0 1.0 H1' B:GFL14 3.3 0.0 1.0 H5 B:CFL15 3.4 0.0 1.0 H2' B:CFL13 3.5 0.0 1.0 O3' B:GFL14 3.6 0.0 1.0 C5' B:GFL14 3.7 0.0 1.0 O2P B:CFL15 3.8 0.0 1.0 H6 B:CFL15 3.8 0.0 1.0 N7 B:GFL14 4.1 0.0 1.0 H4' B:GFL14 4.1 0.0 1.0 C5 B:CFL15 4.1 0.0 1.0 C4 B:GFL14 4.1 0.0 1.0 C6 B:CFL15 4.3 0.0 1.0 P B:CFL15 4.3 0.0 1.0 F B:CFL13 4.3 0.0 1.0 C2' B:CFL13 4.4 0.0 1.0 H5'1 B:GFL14 4.4 0.0 1.0 H5'2 B:GFL14 4.4 0.0 1.0 P B:GFL14 4.5 0.0 1.0 O2P B:GFL14 4.5 0.0 1.0 C5 B:GFL14 4.7 0.0 1.0 O5' B:CFL15 4.7 0.0 1.0 N3 B:GFL14 5.0 0.0 1.0

N.Martin-Pintado, M.Yahyaee-Anzahaee, R.Campos-Olivas, A.M.Noronha, C.J.Wilds, M.J.Damha, C.Gonzalez. The Solution Structure of Double Helical Arabino Nucleic Acids (Ana and 2'F-Ana): Effect of Arabinoses in Duplex-Hairpin Interconversion. Nucleic Acids Res. V. 40 9329 2012.
ISSN: ISSN 0305-1048
PubMed: 22798499
DOI: 10.1093/NAR/GKS672