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Magnesium in PDB 101d: Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation

Protein crystallography data

The structure of Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation, PDB code: 101d was solved by D.S.Goodsell, M.L.Kopka, R.E.Dickerson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 24.270, 39.620, 63.570, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 101d:

The structure of Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation also contains other interesting chemical elements:

Bromine (Br) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation (pdb code 101d). 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 Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation, PDB code: 101d:

Magnesium binding site 1 out of 1 in 101d

Go back to Magnesium Binding Sites List in 101d
Magnesium binding site 1 out of 1 in the Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg26

b:20.3
occ:1.00
O B:HOH60 2.1 28.4 1.0
O B:HOH62 2.1 40.1 1.0
O A:HOH61 2.2 5.8 1.0
N7 A:DG2 4.0 0.0 1.0
C5 A:DC1 4.1 0.8 1.0
C6 A:DC1 4.3 0.0 1.0
O B:HOH43 4.3 6.2 1.0
O6 A:DG2 4.4 0.0 1.0
O6 B:DG22 4.5 0.0 1.0
O A:HOH46 4.6 15.7 1.0
C5 A:DG2 4.9 0.0 1.0
C4 A:DC1 4.9 0.5 1.0

Reference:

D.S.Goodsell, M.L.Kopka, R.E.Dickerson. Refinement of Netropsin Bound to Dna: Bias and Feedback in Electron Density Map Interpretation. Biochemistry V. 34 4983 1995.
ISSN: ISSN 0006-2960
PubMed: 7711020
DOI: 10.1021/BI00015A009
Page generated: Mon Dec 14 03:23:10 2020

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