Atomistry » Sodium » PDB 1evr-1gb5 » 1fn2
Atomistry »
  Sodium »
    PDB 1evr-1gb5 »
      1fn2 »

Sodium in PDB 1fn2: 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2

Protein crystallography data

The structure of 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2, PDB code: 1fn2 was solved by A.Adams, J.M.Guss, C.A.Collyer, W.A.Denny, L.P.G.Wakelin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.60
Space group C 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 28.964, 52.620, 40.455, 90.00, 90.00, 90.00
R / Rfree (%) 25.1 / 29.7

Other elements in 1fn2:

The structure of 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2 also contains other interesting chemical elements:

Cobalt (Co) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2 (pdb code 1fn2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2, PDB code: 1fn2:

Sodium binding site 1 out of 1 in 1fn2

Go back to Sodium Binding Sites List in 1fn2
Sodium binding site 1 out of 1 in the 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 9-Amino-(N-(2-Dimethylamino)Butyl)Acridine-4-Carboxamide Bound to D(Cgtacg)2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na4003

b:37.2
occ:0.25
O B:HOH4029 2.2 21.0 0.5
OP2 B:DG2002 2.5 50.4 1.0
P B:DG2002 4.0 50.4 1.0
C5' B:DG2002 4.7 45.1 1.0
O5' B:DG2002 4.7 49.8 1.0
OP1 B:DG2002 4.8 59.7 1.0
O3' B:DC2001 4.9 42.5 1.0
O4' B:DG2002 5.0 36.1 1.0

Reference:

A.Adams, J.M.Guss, C.A.Collyer, W.A.Denny, L.P.Wakelin. A Novel Form of Intercalation Involving Four Dna Duplexes in An Acridine-4-Carboxamide Complex of D(Cgtacg)(2). Nucleic Acids Res. V. 28 4244 2000.
ISSN: ISSN 0305-1048
PubMed: 11058124
DOI: 10.1093/NAR/28.21.4244
Page generated: Tue Dec 15 05:23:53 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy