Magnesium in PDB 6e0o: Structure of Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa

Protein crystallography data

The structure of Structure of Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa, PDB code: 6e0o was solved by J.B.Eaglesham, A.T.Whiteley, C.C.De Oliveira Mann, B.R.Morehouse, E.A.Nieminen, D.S.King, A.S.Y.Lee, J.J.Mekalanos, P.J.Kranzusch, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.81 / 1.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 57.195, 58.231, 99.446, 90.00, 90.00, 90.00
R / Rfree (%) 14.2 / 16.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa (pdb code 6e0o). 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 Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa, PDB code: 6e0o:

Magnesium binding site 1 out of 1 in 6e0o

Go back to Magnesium Binding Sites List in 6e0o
Magnesium binding site 1 out of 1 in the Structure of Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Elizabethkingia Meningoseptica Cdne Cyclic Dinucleotide Synthase with Pppa[3'-5']Pa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:18.0
occ:1.00
O1A C:ATP1 2.0 21.5 1.0
O1B C:ATP1 2.0 17.7 1.0
O A:HOH441 2.0 20.4 1.0
O A:HOH451 2.1 16.6 1.0
O3G C:ATP1 2.1 23.6 1.0
OD2 A:ASP63 2.1 18.0 1.0
CG A:ASP63 3.1 15.6 1.0
PA C:ATP1 3.2 23.3 1.0
PB C:ATP1 3.2 19.0 1.0
PG C:ATP1 3.3 27.3 1.0
H A:SER49 3.4 15.6 1.0
OD1 A:ASP63 3.4 18.6 1.0
O3B C:ATP1 3.5 24.1 1.0
O3A C:ATP1 3.6 23.5 1.0
HA3 A:GLY48 3.8 16.1 1.0
HO2' C:A2 3.9 78.3 1.0
O2A C:ATP1 4.0 25.2 1.0
O C:HOH206 4.0 36.0 1.0
O1G C:ATP1 4.1 30.9 1.0
OG A:SER49 4.1 20.2 1.0
HG A:SER49 4.2 24.2 1.0
O A:HOH492 4.2 12.6 1.0
N A:SER49 4.2 13.0 1.0
HB3 A:SER49 4.3 20.3 1.0
O A:ASP61 4.4 15.3 1.0
O5' C:ATP1 4.4 25.9 1.0
CB A:ASP63 4.5 13.0 1.0
H5'1 C:ATP1 4.5 33.8 1.0
HB2 A:ASP63 4.5 15.6 1.0
O2G C:ATP1 4.5 30.7 1.0
O2B C:ATP1 4.6 20.7 1.0
H5'2 C:ATP1 4.6 33.8 1.0
CA A:GLY48 4.6 13.4 1.0
O A:HOH672 4.6 40.0 1.0
H3' C:A2 4.7 81.1 1.0
CB A:SER49 4.7 16.9 1.0
HA2 A:GLY48 4.7 16.1 1.0
C5' C:ATP1 4.7 28.2 1.0
O2' C:A2 4.8 65.3 1.0
H A:ASP63 4.8 14.6 1.0
HO3' C:A2 4.9 82.5 1.0
HB2 A:ASP61 5.0 21.5 1.0
C A:GLY48 5.0 12.4 1.0

Reference:

A.T.Whiteley, J.B.Eaglesham, C.C.De Oliveira Mann, B.R.Morehouse, B.Lowey, E.A.Nieminen, O.Danilchanka, D.S.King, A.S.Y.Lee, J.J.Mekalanos, P.J.Kranzusch. Bacterial Cgas-Like Enzymes Synthesize Diverse Nucleotide Signals. Nature V. 567 194 2019.
ISSN: ESSN 1476-4687
PubMed: 30787435
DOI: 10.1038/S41586-019-0953-5
Page generated: Mon Dec 14 22:37:47 2020

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