Magnesium in PDB 1ixj: Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs

The structure of Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs, PDB code: 1ixj was solved by T.Sunami, J.Kondo, T.Kobuna, I.Hirao, K.Watanabe, K.Miura, A.Takenaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.00 / 2.50
Space group	I 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	53.400, 53.400, 54.000, 90.00, 90.00, 90.00
R / Rfree (%)	21.5 / 25.7

The structure of Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs also contains other interesting chemical elements:

Cobalt

(Co)

1 atom

The binding sites of Magnesium atom in the Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs (pdb code 1ixj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs, PDB code: 1ixj:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs


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(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg10 b:0.9 occ:0.50 O A:HOH20 2.0 0.9 0.5 O A:HOH23 2.0 0.7 0.5 O A:HOH25 2.0 0.0 0.5 O A:HOH24 2.0 0.7 0.5 O A:HOH22 2.0 0.9 0.5 O A:HOH21 2.0 0.9 0.5 O A:HOH16 3.9 61.1 1.0 O2 A:DT9 5.0 45.0 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of D(Gcgaaagct) Containing Parallel- Stranded Duplex with Homo Base Pairs and Anti-Parallel Duplex with Watson-Crick Base Pairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg11 b:0.8 occ:1.00 O A:HOH31 2.0 0.7 1.0 O A:HOH29 2.0 0.7 1.0 O A:HOH28 2.0 0.8 1.0 O A:HOH26 2.0 0.4 1.0 O A:HOH30 2.0 0.5 1.0 O A:HOH27 2.0 0.6 1.0 OP2 A:DC2 4.0 73.5 1.0 N7 A:DG3 4.2 42.7 1.0 O6 A:DG3 4.3 40.8 1.0 O A:HOH14 4.6 58.9 1.0

T.Sunami, J.Kondo, T.Kobuna, I.Hirao, K.Watanabe, K.Miura, A.Takenaka. Crystal Structure of D(Gcgaaagct) Containing A Parallel-Stranded Duplex with Homo Base Pairs and An Anti-Parallel Duplex with Watson-Crick Base Pairs Nucleic Acids Res. V. 30 5253 2002.
ISSN: ISSN 0305-1048
PubMed: 12466550
DOI: 10.1093/NAR/GKF639