Sodium in PDB 1l0r: uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins

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

Binding sites:

The binding sites of Sodium atom in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins (pdb code 1l0r). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 12 binding sites of Sodium where determined in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins, PDB code: 1l0r:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Sodium binding site 1 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na16 b:0.0 occ:1.00 O4' A:DA5 2.4 0.0 1.0 N3 A:DA5 2.5 0.0 1.0 O5' A:DA5 3.1 0.0 1.0 H4' A:DA5 3.2 0.0 1.0 H2 A:DA5 3.2 0.0 1.0 O4' A:DG6 3.3 0.0 1.0 C4' A:DA5 3.3 0.0 1.0 C2 A:DA5 3.3 0.0 1.0 C4 A:DA5 3.6 0.0 1.0 C1' A:DA5 3.6 0.0 1.0 H4' A:DG6 3.7 0.0 1.0 C5' A:DA5 3.8 0.0 1.0 H4' A:DA4 3.8 0.0 1.0 H1' A:DA5 3.9 0.0 1.0 N9 A:DA5 4.0 0.0 1.0 C4' A:DG6 4.1 0.0 1.0 OP1 A:DA5 4.1 0.0 1.0 H1' A:DG6 4.2 0.0 1.0 C1' A:DG6 4.2 0.0 1.0 P A:DA5 4.3 0.0 1.0 H5'' A:DA5 4.4 0.0 1.0 O5' A:DG6 4.4 0.0 1.0 H5' A:DA5 4.6 0.0 1.0 N1 A:DA5 4.6 0.0 1.0 C3' A:DA5 4.6 0.0 1.0 N9 A:DG6 4.7 0.0 1.0 C2' A:DA5 4.8 0.0 1.0 C5' A:DG6 4.8 0.0 1.0 C5 A:DA5 4.9 0.0 1.0 C4' A:DA4 4.9 0.0 1.0 N3 A:DG6 4.9 0.0 1.0 O3' A:DA4 4.9 0.0 1.0 C4 A:DG6 5.0 0.0 1.0

Sodium binding site 2 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na17 b:0.0 occ:1.00 O A:HOH334 4.5 0.0 1.0 H1 A:HOH1495 4.8 0.0 1.0 H1 A:HOH334 4.9 0.0 1.0

Sodium binding site 3 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na18 b:0.0 occ:1.00 O A:HOH825 2.5 0.0 1.0 H2 A:HOH825 3.1 0.0 1.0 H1 A:HOH825 3.1 0.0 1.0 O A:HOH149 4.3 0.0 1.0 H2 A:HOH149 4.4 0.0 1.0 H1 A:HOH149 4.6 0.0 1.0 H1 A:HOH2173 4.7 0.0 1.0

Sodium binding site 4 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na19 b:0.0 occ:1.00 O A:HOH1100 2.5 0.0 1.0 H1 A:HOH1100 2.9 0.0 1.0 H2 A:HOH1100 3.1 0.0 1.0 O A:HOH819 4.2 0.0 1.0 H1 A:HOH819 4.3 0.0 1.0 H2 A:HOH819 4.7 0.0 1.0

Sodium binding site 5 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na20 b:0.0 occ:1.00 H2 A:HOH1130 3.3 0.0 1.0 O A:HOH1130 4.2 0.0 1.0 O A:HOH1221 4.2 0.0 1.0 H1 A:HOH1221 4.5 0.0 1.0 H1 A:HOH1130 4.6 0.0 1.0

Sodium binding site 6 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range:

Sodium binding site 7 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na22 b:0.0 occ:1.00 O A:HOH1917 2.5 0.0 1.0 H1 A:HOH1917 2.8 0.0 1.0 H2 A:HOH1917 3.0 0.0 1.0

Sodium binding site 8 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range:

Sodium binding site 9 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 9 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na24 b:0.0 occ:1.00 H2 A:HOH742 4.7 0.0 1.0 O A:HOH731 4.9 0.0 1.0

Sodium binding site 10 out of 12 in the uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 10 of uc(Nmr) Solution Structure of Nogalamycin Intercalation Between Co-Axially Stacked Hairpins within 5.0Å range: probe atom residue distance (Å) B Occ A:Na25 b:0.0 occ:1.00 H1 A:HOH1486 4.6 0.0 1.0 H2 A:HOH90 4.9 0.0 1.0 H1 A:HOH1414 5.0 0.0 1.0

H.E.L.Williams, M.L.Colgrave, M.S.Searle. Drug Recognition of A Dna Single Strand Break: Nogalamycin Intercalation Between Coaxially Stacked Hairpins. Eur.J.Biochem. V. 269 1726 2002.
ISSN: ISSN 0014-2956
PubMed: 11895443
DOI: 10.1046/J.1432-1327.2002.02819.X