Magnesium in PDB 2dp7: Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine

The structure of Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine, PDB code: 2dp7 was solved by E.C.M.Juan, J.Kondo, T.Kurihara, T.Ito, Y.Ueno, A.Matsuda, A.Takenaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	25.403, 39.317, 65.804, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 21.9

The structure of Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine (pdb code 2dp7). 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 Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine, PDB code: 2dp7:

Magnesium binding site 1 out of 1 in the Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of D(Cgcgaatxcgcg) Where X Is 5-(N- Aminohexyl)Carbamoyl-2'-Deoxyuridine within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg13 b:15.1 occ:1.00 O A:HOH112 2.0 15.4 1.0 O A:HOH118 2.0 15.1 1.0 O A:HOH119 2.0 16.2 1.0 O A:HOH111 2.1 15.0 1.0 O A:HOH125 2.1 16.3 1.0 O A:HOH117 2.1 15.9 1.0 OP1 A:DA6 4.1 19.1 1.0 O A:HOH207 4.2 26.4 1.0 O A:HOH116 4.3 17.0 1.0 O A:HOH208 4.3 28.3 1.0 OP2 A:DT7 4.4 14.1 1.0 O A:HOH124 4.4 17.0 1.0 O A:HOH115 4.4 18.0 1.0 OP2 A:DA6 4.5 17.2 1.0 P A:DA6 4.6 17.6 1.0 O5' A:DA6 4.7 15.5 1.0 O A:HOH149 5.0 33.1 1.0

E.C.M.Juan, J.Kondo, T.Kurihara, T.Ito, Y.Ueno, A.Matsuda, A.Takenaka. Crystal Structures of Dna:Dna and Dna:Rna Duplexes Containing 5-(N-Aminohexyl)Carbamoyl-Modified Uracils Reveal the Basis For Properties As Antigene and Antisense Molecules Nucleic Acids Res. V. 35 1969 2007.
ISSN: ISSN 0305-1048
PubMed: 17341465
DOI: 10.1093/NAR/GKL821