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Magnesium in PDB 109d: Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2

Protein crystallography data

The structure of Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2, PDB code: 109d was solved by A.Czarny, D.W.Boykin, A.A.Wood, C.M.Nunn, S.Neidle, M.Zhao, W.D.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 24.590, 40.440, 65.760, 90.00, 90.00, 90.00
R / Rfree (%) 19.7 / n/a

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2 (pdb code 109d). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2, PDB code: 109d:

Magnesium binding site 1 out of 1 in 109d

Go back to Magnesium Binding Sites List in 109d
Magnesium binding site 1 out of 1 in the Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg26

b:22.1
occ:1.00
O A:HOH111 2.2 32.8 1.0
O A:HOH112 2.2 19.6 1.0
O A:HOH113 2.2 23.3 1.0
O A:HOH115 2.2 25.8 1.0
O A:HOH116 2.3 36.4 1.0
O A:HOH114 2.3 29.8 1.0
OP1 A:DA6 4.2 21.1 1.0
O A:HOH52 4.3 37.3 1.0
OP2 A:DT7 4.4 17.8 1.0
O A:HOH60 4.5 67.0 1.0
OP2 A:DA6 4.6 24.4 1.0
O A:HOH41 4.7 38.6 1.0
P A:DA6 4.7 24.6 1.0
O5' A:DA6 4.9 23.6 1.0

Reference:

A.A.Wood, C.M.Nunn, A.Czarny, D.W.Boykin, S.Neidle. Variability in Dna Minor Groove Width Recognised By Ligand Binding: the Crystal Structure of A Bis-Benzimidazole Compound Bound to the Dna Duplex D(Cgcgaattcgcg)2. Nucleic Acids Res. V. 23 3678 1995.
ISSN: ISSN 0305-1048
PubMed: 7478996
DOI: 10.1093/NAR/23.18.3678
Page generated: Mon Dec 14 03:23:10 2020

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