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Magnesium in PDB 3k8t: Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound

Enzymatic activity of Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound

All present enzymatic activity of Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound:
1.17.4.1;

Protein crystallography data

The structure of Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound, PDB code: 3k8t was solved by D.Sun, H.Xu, C.Dealwis, R.E.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.84 / 2.10
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 107.528, 116.915, 64.065, 90.00, 90.00, 90.00
R / Rfree (%) 25.2 / 29

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound (pdb code 3k8t). 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 Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound, PDB code: 3k8t:

Magnesium binding site 1 out of 1 in 3k8t

Go back to Magnesium Binding Sites List in 3k8t
Magnesium binding site 1 out of 1 in the Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Eukaryotic Rnr Large Subunit R1 Complexed with Designed Adp Analog Compound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg889

b:41.2
occ:1.00
O1G A:DGT890 2.2 48.6 1.0
O A:HOH942 2.3 43.8 1.0
O1B A:DGT890 2.3 39.6 1.0
O1A A:DGT890 2.3 37.9 1.0
O A:HOH948 2.3 51.5 1.0
PG A:DGT890 3.3 49.7 1.0
PB A:DGT890 3.4 47.5 1.0
PA A:DGT890 3.5 41.7 1.0
O2G A:DGT890 3.6 46.8 1.0
O3A A:DGT890 3.8 44.1 1.0
O3B A:DGT890 3.8 45.3 1.0
NH2 A:ARG256 4.3 48.1 1.0
O A:ASP226 4.4 49.5 1.0
CB A:SER227 4.4 48.4 1.0
O2A A:DGT890 4.5 37.9 1.0
C5' A:DGT890 4.5 38.6 1.0
O5' A:DGT890 4.6 36.8 1.0
O3G A:DGT890 4.6 43.9 1.0
O2B A:DGT890 4.7 48.5 1.0
CA A:SER227 4.9 48.0 1.0

Reference:

D.Sun, H.Xu, S.R.Wijerathna, C.Dealwis, R.E.Lee. Structure-Based Design, Synthesis, and Evaluation of 2'-(2-Hydroxyethyl)-2'-Deoxyadenosine and the 5'-Diphosphate Derivative As Ribonucleotide Reductase Inhibitors Chemmedchem V. 4 1649 2009.
ISSN: ISSN 1860-7179
PubMed: 19681093
DOI: 10.1002/CMDC.200900236
Page generated: Mon Dec 14 08:21:42 2020

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