Fluorine in PDB 2m8a: 2'F-Ana/2'F-Rna Alternated Sequences

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Fluorine atom in the 2'F-Ana/2'F-Rna Alternated Sequences (pdb code 2m8a). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 24 binding sites of Fluorine where determined in the 2'F-Ana/2'F-Rna Alternated Sequences, PDB code: 2m8a:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F1 b:0.0 occ:1.00 F2' A:CFZ1 0.0 0.0 1.0 C2' A:CFZ1 1.4 0.0 1.0 H2' A:CFZ1 2.0 0.0 1.0 H1' A:CFZ1 2.2 0.0 1.0 C1' A:CFZ1 2.2 0.0 1.0 C3' A:CFZ1 2.5 0.0 1.0 H5'A A:GF22 2.8 0.0 1.0 O4' A:GF22 2.9 0.0 1.0 O3' A:CFZ1 3.0 0.0 1.0 H4' A:CFZ1 3.0 0.0 1.0 O2 A:CFZ1 3.0 0.0 1.0 N1 A:CFZ1 3.1 0.0 1.0 C4' A:CFZ1 3.2 0.0 1.0 O5' A:GF22 3.2 0.0 1.0 O4' A:CFZ1 3.3 0.0 1.0 C5' A:GF22 3.3 0.0 1.0 H3' A:CFZ1 3.4 0.0 1.0 C2 A:CFZ1 3.4 0.0 1.0 H8 A:GF22 3.4 0.0 1.0 C4' A:GF22 3.7 0.0 1.0 P A:GF22 3.8 0.0 1.0 C8 A:GF22 4.0 0.0 1.0 C1' A:GF22 4.1 0.0 1.0 H4' A:GF22 4.2 0.0 1.0 N9 A:GF22 4.3 0.0 1.0 C6 A:CFZ1 4.3 0.0 1.0 H5' A:GF22 4.3 0.0 1.0 H6 A:CFZ1 4.5 0.0 1.0 H1' A:GF22 4.5 0.0 1.0 OP2 A:GF22 4.6 0.0 1.0 C5' A:CFZ1 4.7 0.0 1.0 H3' A:GF22 4.7 0.0 1.0 N3 A:CFZ1 4.7 0.0 1.0 HN2A B:GF224 4.8 0.0 1.0 C3' A:GF22 4.8 0.0 1.0 OP1 A:GF22 4.8 0.0 1.0 N7 A:GF22 4.9 0.0 1.0 H5' A:CFZ1 4.9 0.0 1.0

Fluorine binding site 2 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of 2'F-Ana/2'F-Rna Alternated Sequences 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 2.1 0.0 1.0 C1' A:GF22 2.3 0.0 1.0 C3' A:GF22 2.5 0.0 1.0 H5'A A:CFZ3 2.6 0.0 1.0 O4' A:CFZ3 2.8 0.0 1.0 O3' A:GF22 2.9 0.0 1.0 H4' A:GF22 3.0 0.0 1.0 C4' A:GF22 3.1 0.0 1.0 C5' A:CFZ3 3.2 0.0 1.0 O5' A:CFZ3 3.2 0.0 1.0 O4' A:GF22 3.3 0.0 1.0 N9 A:GF22 3.3 0.0 1.0 H3' A:GF22 3.4 0.0 1.0 H6 A:CFZ3 3.5 0.0 1.0 C4' A:CFZ3 3.5 0.0 1.0 N3 A:GF22 3.6 0.0 1.0 P A:CFZ3 3.7 0.0 1.0 C4 A:GF22 3.8 0.0 1.0 H4' A:CFZ3 4.0 0.0 1.0 C1' A:CFZ3 4.1 0.0 1.0 C6 A:CFZ3 4.1 0.0 1.0 H5' A:CFZ3 4.2 0.0 1.0 N1 A:CFZ3 4.3 0.0 1.0 C8 A:GF22 4.5 0.0 1.0 H1' A:CFZ3 4.5 0.0 1.0 C5' A:GF22 4.6 0.0 1.0 O1P A:CFZ3 4.7 0.0 1.0 O2P A:CFZ3 4.7 0.0 1.0 HN2 A:GF22 4.8 0.0 1.0 C2 A:GF22 4.8 0.0 1.0 H3' A:CFZ3 4.8 0.0 1.0 C3' A:CFZ3 4.8 0.0 1.0 H8 A:GF22 4.8 0.0 1.0 H5' A:GF22 4.9 0.0 1.0

Fluorine binding site 3 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F3 b:0.0 occ:1.00 F2' A:CFZ3 0.0 0.0 1.0 C2' A:CFZ3 1.4 0.0 1.0 H2' A:CFZ3 2.0 0.0 1.0 H1' A:CFZ3 2.2 0.0 1.0 C1' A:CFZ3 2.3 0.0 1.0 H5'A A:GF24 2.5 0.0 1.0 C3' A:CFZ3 2.5 0.0 1.0 O4' A:GF24 2.8 0.0 1.0 H4' A:CFZ3 2.9 0.0 1.0 O3' A:CFZ3 2.9 0.0 1.0 C4' A:CFZ3 3.0 0.0 1.0 C5' A:GF24 3.1 0.0 1.0 O4' A:CFZ3 3.2 0.0 1.0 O5' A:GF24 3.3 0.0 1.0 H3' A:CFZ3 3.4 0.0 1.0 N1 A:CFZ3 3.4 0.0 1.0 C4' A:GF24 3.4 0.0 1.0 O2 A:CFZ3 3.6 0.0 1.0 H8 A:GF24 3.6 0.0 1.0 P A:GF24 3.7 0.0 1.0 H4' A:GF24 3.8 0.0 1.0 C2 A:CFZ3 3.9 0.0 1.0 C1' A:GF24 4.1 0.0 1.0 H5' A:GF24 4.1 0.0 1.0 C8 A:GF24 4.3 0.0 1.0 H1' A:GF24 4.4 0.0 1.0 C6 A:CFZ3 4.4 0.0 1.0 N9 A:GF24 4.5 0.0 1.0 H6 A:CFZ3 4.5 0.0 1.0 C5' A:CFZ3 4.5 0.0 1.0 OP2 A:GF24 4.6 0.0 1.0 HN2A B:GF222 4.7 0.0 1.0 OP1 A:GF24 4.8 0.0 1.0 C3' A:GF24 4.8 0.0 1.0 H5' A:CFZ3 4.9 0.0 1.0 H3' A:GF24 4.9 0.0 1.0

Fluorine binding site 4 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of 2'F-Ana/2'F-Rna Alternated Sequences 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 2.2 0.0 1.0 C1' A:GF24 2.3 0.0 1.0 H5'A A:AF25 2.4 0.0 1.0 C3' A:GF24 2.5 0.0 1.0 O4' A:AF25 2.9 0.0 1.0 O3' A:GF24 2.9 0.0 1.0 C5' A:AF25 3.1 0.0 1.0 H4' A:GF24 3.2 0.0 1.0 C4' A:GF24 3.2 0.0 1.0 O5' A:AF25 3.2 0.0 1.0 N9 A:GF24 3.3 0.0 1.0 O4' A:GF24 3.3 0.0 1.0 H3' A:GF24 3.3 0.0 1.0 N3 A:GF24 3.4 0.0 1.0 C4' A:AF25 3.5 0.0 1.0 H8 A:AF25 3.6 0.0 1.0 C4 A:GF24 3.7 0.0 1.0 P A:AF25 3.8 0.0 1.0 H4' A:AF25 3.9 0.0 1.0 H5' A:AF25 4.1 0.0 1.0 C1' A:AF25 4.1 0.0 1.0 C8 A:AF25 4.3 0.0 1.0 H1' A:AF25 4.5 0.0 1.0 HN2 A:GF24 4.5 0.0 1.0 C8 A:GF24 4.5 0.0 1.0 N9 A:AF25 4.5 0.0 1.0 C2 A:GF24 4.5 0.0 1.0 OP2 A:AF25 4.6 0.0 1.0 C5' A:GF24 4.7 0.0 1.0 OP1 A:AF25 4.8 0.0 1.0 C3' A:AF25 4.8 0.0 1.0 H3' A:AF25 4.9 0.0 1.0 H8 A:GF24 4.9 0.0 1.0 C5 A:GF24 4.9 0.0 1.0 N2 A:GF24 5.0 0.0 1.0

Fluorine binding site 5 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F5 b:0.0 occ:1.00 F A:AF25 0.0 0.0 1.0 C2' A:AF25 1.4 0.0 1.0 H2' A:AF25 2.0 0.0 1.0 H1' A:AF25 2.2 0.0 1.0 C1' A:AF25 2.2 0.0 1.0 H5'A A:AF26 2.4 0.0 1.0 C3' A:AF25 2.5 0.0 1.0 O4' A:AF26 2.8 0.0 1.0 O3' A:AF25 2.9 0.0 1.0 H4' A:AF25 3.0 0.0 1.0 C5' A:AF26 3.1 0.0 1.0 C4' A:AF25 3.1 0.0 1.0 O4' A:AF25 3.2 0.0 1.0 C4' A:AF26 3.3 0.0 1.0 O5' A:AF26 3.3 0.0 1.0 N9 A:AF25 3.4 0.0 1.0 H3' A:AF25 3.4 0.0 1.0 H4' A:AF26 3.4 0.0 1.0 N3 A:AF25 3.6 0.0 1.0 P A:AF26 3.8 0.0 1.0 C4 A:AF25 3.9 0.0 1.0 H8 A:AF26 4.0 0.0 1.0 C1' A:AF26 4.0 0.0 1.0 H5' A:AF26 4.1 0.0 1.0 H1' A:AF26 4.2 0.0 1.0 C8 A:AF25 4.6 0.0 1.0 C8 A:AF26 4.6 0.0 1.0 C5' A:AF25 4.6 0.0 1.0 OP2 A:AF26 4.7 0.0 1.0 N9 A:AF26 4.7 0.0 1.0 C3' A:AF26 4.7 0.0 1.0 OP1 A:AF26 4.7 0.0 1.0 C2 A:AF25 4.9 0.0 1.0 H8 A:AF25 4.9 0.0 1.0 H5' A:AF25 4.9 0.0 1.0 H3' A:AF26 4.9 0.0 1.0

Fluorine binding site 6 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F6 b:0.0 occ:1.00 F A:AF26 0.0 0.0 1.0 C2' A:AF26 1.4 0.0 1.0 H2' A:AF26 2.0 0.0 1.0 H1' A:AF26 2.2 0.0 1.0 C1' A:AF26 2.2 0.0 1.0 H5'' A:TAF7 2.4 0.0 1.0 C3' A:AF26 2.5 0.0 1.0 O3' A:AF26 2.9 0.0 1.0 H4' A:AF26 3.1 0.0 1.0 C5' A:TAF7 3.1 0.0 1.0 O4' A:TAF7 3.1 0.0 1.0 C4' A:AF26 3.2 0.0 1.0 O5' A:TAF7 3.2 0.0 1.0 O4' A:AF26 3.3 0.0 1.0 N9 A:AF26 3.3 0.0 1.0 H3' A:AF26 3.4 0.0 1.0 N3 A:AF26 3.5 0.0 1.0 H6 A:TAF7 3.6 0.0 1.0 C4' A:TAF7 3.6 0.0 1.0 C4 A:AF26 3.7 0.0 1.0 P A:TAF7 3.8 0.0 1.0 H4' A:TAF7 3.9 0.0 1.0 H5' A:TAF7 4.0 0.0 1.0 C6 A:TAF7 4.2 0.0 1.0 C1' A:TAF7 4.4 0.0 1.0 C8 A:AF26 4.5 0.0 1.0 N1 A:TAF7 4.6 0.0 1.0 OP2 A:TAF7 4.6 0.0 1.0 C2 A:AF26 4.7 0.0 1.0 C5' A:AF26 4.7 0.0 1.0 OP1 A:TAF7 4.8 0.0 1.0 H72 A:TAF7 4.8 0.0 1.0 H2 A:AF25 4.8 0.0 1.0 H8 A:AF26 4.9 0.0 1.0 H2 A:AF26 5.0 0.0 1.0 H5' A:AF26 5.0 0.0 1.0

Fluorine binding site 7 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F7 b:0.0 occ:1.00 F2' A:TAF7 0.0 0.0 1.0 C2' A:TAF7 1.4 0.0 1.0 H2' A:TAF7 2.0 0.0 1.0 H3' A:TAF7 2.4 0.0 1.0 C3' A:TAF7 2.4 0.0 1.0 C1' A:TAF7 2.4 0.0 1.0 H6 A:TAF7 2.6 0.0 1.0 H6 A:UFT8 2.7 0.0 1.0 N1 A:TAF7 2.7 0.0 1.0 C6 A:TAF7 2.8 0.0 1.0 O4' A:TAF7 3.1 0.0 1.0 C4' A:TAF7 3.1 0.0 1.0 O5' A:TAF7 3.2 0.0 1.0 H1' A:TAF7 3.3 0.0 1.0 H5 A:UFT8 3.4 0.0 1.0 C6 A:UFT8 3.5 0.0 1.0 O3' A:TAF7 3.6 0.0 1.0 C5' A:TAF7 3.7 0.0 1.0 C2 A:TAF7 3.7 0.0 1.0 C5 A:TAF7 3.8 0.0 1.0 C5 A:UFT8 3.8 0.0 1.0 OP2 A:UFT8 4.1 0.0 1.0 H5' A:TAF7 4.1 0.0 1.0 H4' A:TAF7 4.1 0.0 1.0 O5' A:UFT8 4.2 0.0 1.0 P A:UFT8 4.3 0.0 1.0 O2 A:TAF7 4.3 0.0 1.0 O4' A:UFT8 4.3 0.0 1.0 H72 A:TAF7 4.3 0.0 1.0 N3 A:TAF7 4.5 0.0 1.0 H2' A:AF26 4.5 0.0 1.0 C5M A:TAF7 4.5 0.0 1.0 P A:TAF7 4.5 0.0 1.0 H5'' A:TAF7 4.6 0.0 1.0 C4 A:TAF7 4.6 0.0 1.0 N1 A:UFT8 4.6 0.0 1.0 OP2 A:TAF7 4.6 0.0 1.0 H71 A:TAF7 4.7 0.0 1.0

Fluorine binding site 8 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F8 b:0.0 occ:1.00 F2' A:UFT8 0.0 0.0 1.0 C2' A:UFT8 1.4 0.0 1.0 H2' A:UFT8 2.0 0.0 1.0 H1' A:UFT8 2.2 0.0 1.0 C1' A:UFT8 2.2 0.0 1.0 C3' A:UFT8 2.5 0.0 1.0 H5'2 A:CFL9 2.6 0.0 1.0 H6 A:CFL9 2.6 0.0 1.0 O3' A:UFT8 2.9 0.0 1.0 O5' A:CFL9 2.9 0.0 1.0 O4' A:CFL9 3.0 0.0 1.0 O2 A:UFT8 3.0 0.0 1.0 N1 A:UFT8 3.0 0.0 1.0 C5' A:CFL9 3.1 0.0 1.0 C6 A:CFL9 3.3 0.0 1.0 C2 A:UFT8 3.3 0.0 1.0 H3' A:UFT8 3.3 0.0 1.0 C4' A:UFT8 3.3 0.0 1.0 O4' A:UFT8 3.4 0.0 1.0 H4' A:UFT8 3.4 0.0 1.0 P A:CFL9 3.5 0.0 1.0 C4' A:CFL9 3.6 0.0 1.0 N1 A:CFL9 3.9 0.0 1.0 C1' A:CFL9 4.0 0.0 1.0 C5 A:CFL9 4.0 0.0 1.0 H5'1 A:CFL9 4.1 0.0 1.0 H5 A:CFL9 4.1 0.0 1.0 C6 A:UFT8 4.1 0.0 1.0 O2P A:CFL9 4.2 0.0 1.0 H4' A:CFL9 4.2 0.0 1.0 H6 A:UFT8 4.4 0.0 1.0 N3 A:UFT8 4.5 0.0 1.0 F A:CFL9 4.5 0.0 1.0 O1P A:CFL9 4.7 0.0 1.0 C2' A:CFL9 4.7 0.0 1.0 C3' A:CFL9 4.8 0.0 1.0 C5' A:UFT8 4.8 0.0 1.0 H1' A:CFL9 4.9 0.0 1.0 H2 B:AF217 4.9 0.0 1.0 HN3 A:UFT8 5.0 0.0 1.0

Fluorine binding site 9 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of 2'F-Ana/2'F-Rna Alternated Sequences 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 C1' A:CFL9 2.4 0.0 1.0 C3' A:CFL9 2.4 0.0 1.0 H6 A:CFL9 2.4 0.0 1.0 H3' A:CFL9 2.4 0.0 1.0 N1 A:CFL9 2.8 0.0 1.0 C6 A:CFL9 2.8 0.0 1.0 H8 A:GF210 3.0 0.0 1.0 O4' A:CFL9 3.0 0.0 1.0 C4' A:CFL9 3.1 0.0 1.0 O5' A:CFL9 3.2 0.0 1.0 H1' A:CFL9 3.2 0.0 1.0 O3' A:CFL9 3.6 0.0 1.0 C5' A:CFL9 3.6 0.0 1.0 C5 A:CFL9 3.9 0.0 1.0 C2 A:CFL9 3.9 0.0 1.0 C8 A:GF210 3.9 0.0 1.0 OP2 A:GF210 4.1 0.0 1.0 H4' A:CFL9 4.1 0.0 1.0 H5'1 A:CFL9 4.3 0.0 1.0 P A:GF210 4.3 0.0 1.0 O4' A:GF210 4.3 0.0 1.0 O5' A:GF210 4.3 0.0 1.0 H5 A:CFL9 4.4 0.0 1.0 H5'2 A:CFL9 4.5 0.0 1.0 H2' A:UFT8 4.5 0.0 1.0 F2' A:UFT8 4.5 0.0 1.0 P A:CFL9 4.5 0.0 1.0 O2 A:CFL9 4.6 0.0 1.0 O2P A:CFL9 4.6 0.0 1.0 N7 A:GF210 4.6 0.0 1.0 C4 A:CFL9 4.7 0.0 1.0 N3 A:CFL9 4.8 0.0 1.0 N9 A:GF210 4.9 0.0 1.0 C2' A:UFT8 5.0 0.0 1.0

Fluorine binding site 10 out of 24 in the 2'F-Ana/2'F-Rna Alternated Sequences


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of 2'F-Ana/2'F-Rna Alternated Sequences within 5.0Å range: probe atom residue distance (Å) B Occ A:F10 b:0.0 occ:1.00 F A:GF210 0.0 0.0 1.0 C2' A:GF210 1.4 0.0 1.0 H2' A:GF210 2.1 0.0 1.0 H1' A:GF210 2.1 0.0 1.0 C1' A:GF210 2.2 0.0 1.0 H6 A:CFL11 2.4 0.0 1.0 C3' A:GF210 2.5 0.0 1.0 O3' A:GF210 2.8 0.0 1.0 O5' A:CFL11 2.8 0.0 1.0 H5'2 A:CFL11 2.9 0.0 1.0 N9 A:GF210 3.0 0.0 1.0 C6 A:CFL11 3.0 0.0 1.0 N3 A:GF210 3.0 0.0 1.0 O4' A:CFL11 3.0 0.0 1.0 C5' A:CFL11 3.2 0.0 1.0 H3' A:GF210 3.3 0.0 1.0 C4 A:GF210 3.3 0.0 1.0 C4' A:GF210 3.4 0.0 1.0 O4' A:GF210 3.4 0.0 1.0 P A:CFL11 3.4 0.0 1.0 H4' A:GF210 3.4 0.0 1.0 N1 A:CFL11 3.6 0.0 1.0 C4' A:CFL11 3.7 0.0 1.0 C5 A:CFL11 3.8 0.0 1.0 C1' A:CFL11 3.8 0.0 1.0 H5 A:CFL11 3.9 0.0 1.0 O2P A:CFL11 4.0 0.0 1.0 HN2 A:GF210 4.0 0.0 1.0 F A:CFL11 4.1 0.0 1.0 C2 A:GF210 4.1 0.0 1.0 C8 A:GF210 4.2 0.0 1.0 H5'1 A:CFL11 4.3 0.0 1.0 H4' A:CFL11 4.4 0.0 1.0 C2' A:CFL11 4.5 0.0 1.0 N2 A:GF210 4.5 0.0 1.0 C5 A:GF210 4.5 0.0 1.0 O1P A:CFL11 4.6 0.0 1.0 H8 A:GF210 4.6 0.0 1.0 C2 A:CFL11 4.7 0.0 1.0 C3' A:CFL11 4.8 0.0 1.0 H1' A:CFL11 4.8 0.0 1.0 C5' A:GF210 4.8 0.0 1.0 C4 A:CFL11 4.9 0.0 1.0 N7 A:GF210 5.0 0.0 1.0

N.Martin-Pintado, G.F.Deleavey, G.Portella, R.Campos-Olivas, M.Orozco, M.J.Damha, C.Gonzalez. Backbone Fcho Hydrogen Bonds in 2'F-Substituted Nucleic Acids. Angew.Chem.Int.Ed.Engl. V. 52 12065 2013.
ISSN: ISSN 1433-7851
PubMed: 24115468
DOI: 10.1002/ANIE.201305710