Fluorine in PDB 2kwg: Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct

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

Binding sites:

The binding sites of Fluorine atom in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct (pdb code 2kwg). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 21 binding sites of Fluorine where determined in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct, PDB code: 2kwg:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F1 b:0.0 occ:1.00 F A:GF21 0.0 0.0 1.0 C2' A:GF21 1.4 0.0 1.0 H2' A:GF21 2.0 0.0 1.0 C1' A:GF21 2.4 0.0 1.0 C3' A:GF21 2.4 0.0 1.0 H1' A:GF21 2.4 0.0 1.0 H5' A:OMG2 2.6 0.0 1.0 H4' A:GF21 2.7 0.0 1.0 O3' A:GF21 2.8 0.0 1.0 C4' A:GF21 2.9 0.0 1.0 O4' A:GF21 3.0 0.0 1.0 H3' A:GF21 3.3 0.0 1.0 C5' A:OMG2 3.4 0.0 1.0 O4' A:OMG2 3.6 0.0 1.0 O5' A:OMG2 3.6 0.0 1.0 N9 A:GF21 3.6 0.0 1.0 P A:OMG2 3.9 0.0 1.0 C4' A:OMG2 4.0 0.0 1.0 N3 A:GF21 4.1 0.0 1.0 C4 A:GF21 4.2 0.0 1.0 H4' A:OMG2 4.3 0.0 1.0 H5'' A:OMG2 4.3 0.0 1.0 H8 A:OMG2 4.4 0.0 1.0 C5' A:GF21 4.4 0.0 1.0 H5'A A:GF21 4.7 0.0 1.0 OP1 A:OMG2 4.7 0.0 1.0 C8 A:GF21 4.8 0.0 1.0 OP2 A:OMG2 4.9 0.0 1.0 C1' A:OMG2 4.9 0.0 1.0 H5' A:GF21 5.0 0.0 1.0

Fluorine binding site 2 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F3 b:0.0 occ:1.00 F A:GF23 0.0 0.0 1.0 C2' A:GF23 1.4 0.0 1.0 H2' A:GF23 2.0 0.0 1.0 C1' A:GF23 2.4 0.0 1.0 H1' A:GF23 2.4 0.0 1.0 C3' A:GF23 2.4 0.0 1.0 H5' A:OMU4 2.6 0.0 1.0 H4' A:GF23 2.7 0.0 1.0 O3' A:GF23 2.8 0.0 1.0 C4' A:GF23 2.9 0.0 1.0 O4' A:GF23 3.1 0.0 1.0 H3' A:GF23 3.4 0.0 1.0 C5' A:OMU4 3.5 0.0 1.0 N9 A:GF23 3.6 0.0 1.0 O5' A:OMU4 3.6 0.0 1.0 O4' A:OMU4 3.7 0.0 1.0 P A:OMU4 3.9 0.0 1.0 N3 A:GF23 4.0 0.0 1.0 C4' A:OMU4 4.1 0.0 1.0 C4 A:GF23 4.2 0.0 1.0 H5'' A:OMU4 4.3 0.0 1.0 C5' A:GF23 4.4 0.0 1.0 H4' A:OMU4 4.4 0.0 1.0 H6 A:OMU4 4.5 0.0 1.0 H5'A A:GF23 4.7 0.0 1.0 OP1 A:OMU4 4.7 0.0 1.0 C8 A:GF23 4.7 0.0 1.0 OP2 A:OMU4 4.9 0.0 1.0 H5' A:GF23 4.9 0.0 1.0

Fluorine binding site 3 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct 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 C1' A:AF25 2.4 0.0 1.0 C3' A:AF25 2.4 0.0 1.0 H1' A:AF25 2.5 0.0 1.0 H5' A:A2M6 2.5 0.0 1.0 H4' A:AF25 2.7 0.0 1.0 O3' A:AF25 2.8 0.0 1.0 C4' A:AF25 2.9 0.0 1.0 O4' A:AF25 3.1 0.0 1.0 O4' A:A2M6 3.1 0.0 1.0 C5' A:A2M6 3.2 0.0 1.0 H3' A:AF25 3.3 0.0 1.0 O5' A:A2M6 3.4 0.0 1.0 N9 A:AF25 3.6 0.0 1.0 C4' A:A2M6 3.6 0.0 1.0 P A:A2M6 3.8 0.0 1.0 H4' A:A2M6 3.9 0.0 1.0 H8 A:A2M6 4.1 0.0 1.0 N3 A:AF25 4.1 0.0 1.0 H5'' A:A2M6 4.2 0.0 1.0 C4 A:AF25 4.2 0.0 1.0 C1' A:A2M6 4.4 0.0 1.0 C5' A:AF25 4.4 0.0 1.0 OP1 A:A2M6 4.6 0.0 1.0 H1' A:A2M6 4.7 0.0 1.0 OP2 A:A2M6 4.7 0.0 1.0 C8 A:AF25 4.7 0.0 1.0 H5' A:AF25 4.7 0.0 1.0 C8 A:A2M6 4.8 0.0 1.0 N9 A:A2M6 4.9 0.0 1.0 H8 A:AF25 5.0 0.0 1.0 H5'A A:AF25 5.0 0.0 1.0

Fluorine binding site 4 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F7 b:0.0 occ:1.00 F A:AF27 0.0 0.0 1.0 C2' A:AF27 1.4 0.0 1.0 H2' A:AF27 2.0 0.0 1.0 C1' A:AF27 2.4 0.0 1.0 H1' A:AF27 2.4 0.0 1.0 C3' A:AF27 2.4 0.0 1.0 H5' A:OMU8 2.6 0.0 1.0 H4' A:AF27 2.7 0.0 1.0 O3' A:AF27 2.8 0.0 1.0 C4' A:AF27 2.9 0.0 1.0 O4' A:AF27 3.0 0.0 1.0 H3' A:AF27 3.4 0.0 1.0 C5' A:OMU8 3.4 0.0 1.0 O4' A:OMU8 3.4 0.0 1.0 O5' A:OMU8 3.5 0.0 1.0 N9 A:AF27 3.6 0.0 1.0 P A:OMU8 3.8 0.0 1.0 C4' A:OMU8 3.9 0.0 1.0 N3 A:AF27 4.1 0.0 1.0 H6 A:OMU8 4.1 0.0 1.0 H4' A:OMU8 4.2 0.0 1.0 C4 A:AF27 4.3 0.0 1.0 H5'' A:OMU8 4.3 0.0 1.0 C5' A:AF27 4.4 0.0 1.0 OP1 A:OMU8 4.7 0.0 1.0 H5' A:AF27 4.7 0.0 1.0 C1' A:OMU8 4.8 0.0 1.0 C8 A:AF27 4.8 0.0 1.0 OP2 A:OMU8 4.8 0.0 1.0 C6 A:OMU8 4.9 0.0 1.0 H5'A A:AF27 4.9 0.0 1.0

Fluorine binding site 5 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F9 b:0.0 occ:1.00 F A:AF29 0.0 0.0 1.0 C2' A:AF29 1.4 0.0 1.0 H2' A:AF29 2.0 0.0 1.0 C1' A:AF29 2.4 0.0 1.0 C3' A:AF29 2.4 0.0 1.0 H1' A:AF29 2.5 0.0 1.0 H5' A:OMC10 2.5 0.0 1.0 H4' A:AF29 2.7 0.0 1.0 O3' A:AF29 2.8 0.0 1.0 C4' A:AF29 2.9 0.0 1.0 O4' A:AF29 3.0 0.0 1.0 C5' A:OMC10 3.3 0.0 1.0 H3' A:AF29 3.3 0.0 1.0 O4' A:OMC10 3.4 0.0 1.0 O5' A:OMC10 3.5 0.0 1.0 N9 A:AF29 3.6 0.0 1.0 C4' A:OMC10 3.8 0.0 1.0 P A:OMC10 3.8 0.0 1.0 H4' A:OMC10 4.1 0.0 1.0 N3 A:AF29 4.1 0.0 1.0 H6 A:OMC10 4.2 0.0 1.0 H5'' A:OMC10 4.2 0.0 1.0 C4 A:AF29 4.3 0.0 1.0 C5' A:AF29 4.4 0.0 1.0 OP1 A:OMC10 4.7 0.0 1.0 C1' A:OMC10 4.7 0.0 1.0 H5' A:AF29 4.7 0.0 1.0 C8 A:AF29 4.8 0.0 1.0 OP2 A:OMC10 4.8 0.0 1.0 H5'A A:AF29 4.9 0.0 1.0 C6 A:OMC10 5.0 0.0 1.0 H1' A:OMC10 5.0 0.0 1.0

Fluorine binding site 6 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F11 b:0.0 occ:1.00 F A:AF211 0.0 0.0 1.0 C2' A:AF211 1.4 0.0 1.0 H2' A:AF211 2.0 0.0 1.0 C1' A:AF211 2.4 0.0 1.0 C3' A:AF211 2.4 0.0 1.0 H1' A:AF211 2.4 0.0 1.0 H5' A:OMU12 2.5 0.0 1.0 H4' A:AF211 2.7 0.0 1.0 O3' A:AF211 2.8 0.0 1.0 C4' A:AF211 2.9 0.0 1.0 O4' A:AF211 3.0 0.0 1.0 O4' A:OMU12 3.3 0.0 1.0 C5' A:OMU12 3.3 0.0 1.0 H3' A:AF211 3.4 0.0 1.0 O5' A:OMU12 3.5 0.0 1.0 N9 A:AF211 3.6 0.0 1.0 C4' A:OMU12 3.8 0.0 1.0 P A:OMU12 3.8 0.0 1.0 H4' A:OMU12 4.0 0.0 1.0 H6 A:OMU12 4.1 0.0 1.0 N3 A:AF211 4.1 0.0 1.0 H5'' A:OMU12 4.2 0.0 1.0 C4 A:AF211 4.3 0.0 1.0 C5' A:AF211 4.4 0.0 1.0 C1' A:OMU12 4.6 0.0 1.0 OP1 A:OMU12 4.7 0.0 1.0 H5' A:AF211 4.7 0.0 1.0 C8 A:AF211 4.8 0.0 1.0 OP2 A:OMU12 4.8 0.0 1.0 C6 A:OMU12 4.9 0.0 1.0 H1' A:OMU12 4.9 0.0 1.0 HN2A B:GF231 5.0 0.0 1.0 H5'A A:AF211 5.0 0.0 1.0

Fluorine binding site 7 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F13 b:0.0 occ:1.00 F2' A:UFT13 0.0 0.0 1.0 C2' A:UFT13 1.4 0.0 1.0 H2' A:UFT13 2.0 0.0 1.0 C1' A:UFT13 2.4 0.0 1.0 H1' A:UFT13 2.4 0.0 1.0 C3' A:UFT13 2.4 0.0 1.0 H5' A:OMC14 2.5 0.0 1.0 H4' A:UFT13 2.7 0.0 1.0 O3' A:UFT13 2.8 0.0 1.0 C4' A:UFT13 2.9 0.0 1.0 O4' A:UFT13 3.0 0.0 1.0 C5' A:OMC14 3.3 0.0 1.0 H3' A:UFT13 3.3 0.0 1.0 O4' A:OMC14 3.4 0.0 1.0 O5' A:OMC14 3.5 0.0 1.0 N1 A:UFT13 3.6 0.0 1.0 O2 A:UFT13 3.8 0.0 1.0 P A:OMC14 3.8 0.0 1.0 C4' A:OMC14 3.9 0.0 1.0 C2 A:UFT13 4.1 0.0 1.0 H4' A:OMC14 4.1 0.0 1.0 H6 A:OMC14 4.2 0.0 1.0 H5'' A:OMC14 4.2 0.0 1.0 C5' A:UFT13 4.4 0.0 1.0 OP1 A:OMC14 4.6 0.0 1.0 C6 A:UFT13 4.7 0.0 1.0 H5'A A:UFT13 4.7 0.0 1.0 C1' A:OMC14 4.7 0.0 1.0 H6 A:UFT13 4.8 0.0 1.0 OP2 A:OMC14 4.8 0.0 1.0 C6 A:OMC14 4.9 0.0 1.0 H5' A:UFT13 5.0 0.0 1.0

Fluorine binding site 8 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F15 b:0.0 occ:1.00 F2' A:UFT15 0.0 0.0 1.0 C2' A:UFT15 1.4 0.0 1.0 H2' A:UFT15 2.0 0.0 1.0 H6 A:OMU16 2.4 0.0 1.0 C1' A:UFT15 2.4 0.0 1.0 C3' A:UFT15 2.5 0.0 1.0 H1' A:UFT15 2.6 0.0 1.0 H5 A:OMU16 2.6 0.0 1.0 H3' A:UFT15 2.9 0.0 1.0 O3' A:UFT15 2.9 0.0 1.0 OP2 A:OMU16 3.0 0.0 1.0 N1 A:UFT15 3.1 0.0 1.0 O5' A:OMU16 3.1 0.0 1.0 C6 A:OMU16 3.2 0.0 1.0 P A:OMU16 3.2 0.0 1.0 C5 A:OMU16 3.2 0.0 1.0 O4' A:UFT15 3.6 0.0 1.0 C4' A:UFT15 3.6 0.0 1.0 C6 A:UFT15 3.7 0.0 1.0 C2 A:UFT15 3.8 0.0 1.0 H6 A:UFT15 3.8 0.0 1.0 O2 A:UFT15 4.0 0.0 1.0 C5' A:OMU16 4.3 0.0 1.0 O5' A:UFT15 4.3 0.0 1.0 O4' A:OMU16 4.4 0.0 1.0 H4' A:UFT15 4.4 0.0 1.0 N1 A:OMU16 4.4 0.0 1.0 H5' A:OMU16 4.5 0.0 1.0 H3' A:OMU16 4.5 0.0 1.0 C5' A:UFT15 4.6 0.0 1.0 C4 A:OMU16 4.6 0.0 1.0 C5 A:UFT15 4.7 0.0 1.0 N3 A:UFT15 4.7 0.0 1.0 OP1 A:OMU16 4.7 0.0 1.0 C4' A:OMU16 4.8 0.0 1.0 H5'A A:UFT15 5.0 0.0 1.0

Fluorine binding site 9 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F17 b:0.0 occ:1.00 F2' A:CFZ17 0.0 0.0 1.0 C2' A:CFZ17 1.4 0.0 1.0 H2' A:CFZ17 2.0 0.0 1.0 C1' A:CFZ17 2.4 0.0 1.0 H1' A:CFZ17 2.4 0.0 1.0 C3' A:CFZ17 2.4 0.0 1.0 H4' A:CFZ17 2.7 0.0 1.0 H5' A:A2M18 2.7 0.0 1.0 O3' A:CFZ17 2.8 0.0 1.0 C4' A:CFZ17 2.9 0.0 1.0 O4' A:CFZ17 3.1 0.0 1.0 O4' A:A2M18 3.3 0.0 1.0 H3' A:CFZ17 3.4 0.0 1.0 C5' A:A2M18 3.4 0.0 1.0 O5' A:A2M18 3.5 0.0 1.0 N1 A:CFZ17 3.6 0.0 1.0 P A:A2M18 3.8 0.0 1.0 O2 A:CFZ17 3.8 0.0 1.0 C4' A:A2M18 3.9 0.0 1.0 H8 A:A2M18 4.1 0.0 1.0 C2 A:CFZ17 4.2 0.0 1.0 H4' A:A2M18 4.3 0.0 1.0 H5'' A:A2M18 4.4 0.0 1.0 C5' A:CFZ17 4.4 0.0 1.0 C1' A:A2M18 4.6 0.0 1.0 C6 A:CFZ17 4.7 0.0 1.0 H5'A A:CFZ17 4.7 0.0 1.0 C8 A:A2M18 4.7 0.0 1.0 OP1 A:A2M18 4.7 0.0 1.0 H6 A:CFZ17 4.8 0.0 1.0 OP2 A:A2M18 4.8 0.0 1.0 H1' A:A2M18 4.9 0.0 1.0 N9 A:A2M18 4.9 0.0 1.0 H5' A:CFZ17 4.9 0.0 1.0 HM21 A:OMU16 5.0 0.0 1.0

Fluorine binding site 10 out of 21 in the Solution Structure of A Fully Modified 2'-F/2'-Ome Sirna Construct


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 A Fully Modified 2'-F/2'-Ome Sirna Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:F19 b:0.0 occ:1.00 F2' A:UFT19 0.0 0.0 1.0 C2' A:UFT19 1.4 0.0 1.0 H2' A:UFT19 2.0 0.0 1.0 C1' A:UFT19 2.4 0.0 1.0 H1' A:UFT19 2.4 0.0 1.0 C3' A:UFT19 2.4 0.0 1.0 H5' A:OMU20 2.6 0.0 1.0 H4' A:UFT19 2.7 0.0 1.0 O3' A:UFT19 2.8 0.0 1.0 C4' A:UFT19 2.9 0.0 1.0 O4' A:UFT19 3.1 0.0 1.0 H3' A:UFT19 3.3 0.0 1.0 C5' A:OMU20 3.5 0.0 1.0 N1 A:UFT19 3.6 0.0 1.0 O5' A:OMU20 3.7 0.0 1.0 O2 A:UFT19 3.7 0.0 1.0 P A:OMU20 3.9 0.0 1.0 O4' A:OMU20 4.0 0.0 1.0 C2 A:UFT19 4.0 0.0 1.0 C4' A:OMU20 4.2 0.0 1.0 H5'' A:OMU20 4.3 0.0 1.0 C5' A:UFT19 4.4 0.0 1.0 H4' A:OMU20 4.5 0.0 1.0 OP1 A:OMU20 4.5 0.0 1.0 H6 A:OMU20 4.5 0.0 1.0 C6 A:UFT19 4.6 0.0 1.0 H5'A A:UFT19 4.7 0.0 1.0 H6 A:UFT19 4.8 0.0 1.0 OP2 A:OMU20 5.0 0.0 1.0 H5' A:UFT19 5.0 0.0 1.0 HM'1 A:A2M18 5.0 0.0 1.0

P.Podbevsek, C.R.Allerson, B.Bhat, J.Plavec. Solution-State Structure of A Fully Alternately 2'-F/2'-Ome Modified 42-Nt Dimeric Sirna Construct. Nucleic Acids Res. V. 38 7298 2010.
ISSN: ISSN 0305-1048
PubMed: 20624819
DOI: 10.1093/NAR/GKQ621