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Magnesium in PDB 6xki: Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog

Enzymatic activity of Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog

All present enzymatic activity of Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog:
3.6.4.13;

Protein crystallography data

The structure of Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog, PDB code: 6xki was solved by J.Liang, S.K.Naineni, J.Pelletier, B.Nagar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.58 / 2.87
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 66.785, 99.942, 153.663, 90, 90, 90
R / Rfree (%) 22.2 / 26.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog (pdb code 6xki). 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 EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog, PDB code: 6xki:

Magnesium binding site 1 out of 1 in 6xki

Go back to Magnesium Binding Sites List in 6xki
Magnesium binding site 1 out of 1 in the Crystal Structure of EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog


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 EIF4A-I in Complex with Rna Bound to Des-Mepatea, A Pateamine A Analog within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:45.1
occ:1.00
 O A:HOH617 2.0 45.0 1.0
O A:HOH613 2.0 44.8 1.0
O1B A:ANP501 2.1 57.6 1.0
O A:HOH602 2.1 50.5 1.0
O3G A:ANP501 2.2 53.4 1.0
O A:HOH601 2.2 51.9 1.0
HG1 A:THR83 3.1 62.3 1.0
HA2 A:GLY335 3.3 58.7 1.0
PB A:ANP501 3.3 55.3 1.0
HNB1 A:ANP501 3.3 76.2 1.0
PG A:ANP501 3.4 51.2 1.0
OG1 A:THR83 3.5 50.3 1.0
N3B A:ANP501 3.5 61.9 1.0
OD2 A:ASP182 3.6 42.3 1.0
O1A A:ANP501 3.6 61.9 1.0
HA3 A:GLY335 3.8 58.7 1.0
HB2 A:LYS82 3.8 74.0 1.0
HE2 A:LYS82 3.8 72.0 1.0
CA A:GLY335 4.0 47.3 1.0
OD1 A:ASP182 4.0 37.7 1.0
O2G A:ANP501 4.1 50.7 1.0
OE2 A:GLU183 4.2 40.7 1.0
HD11 A:LEU112 4.2 51.2 1.0
CG A:ASP182 4.2 39.4 1.0
H A:THR83 4.3 68.3 1.0
O2B A:ANP501 4.3 58.5 1.0
O3A A:ANP501 4.4 60.0 1.0
O A:GLY335 4.5 50.8 1.0
O1G A:ANP501 4.5 57.4 1.0
PA A:ANP501 4.5 59.0 1.0
O A:HOH618 4.6 43.2 1.0
N A:THR83 4.6 55.4 1.0
CB A:LYS82 4.7 60.1 1.0
HD21 A:LEU112 4.7 48.1 1.0
HB3 A:LYS82 4.8 74.0 1.0
CB A:THR83 4.8 53.1 1.0
CE A:LYS82 4.8 58.4 1.0
C A:GLY335 4.8 49.8 1.0
HA A:THR83 4.8 66.6 1.0
HG2 A:GLU183 4.9 46.5 1.0

Reference:

S.K.Naineni, J.Liang, K.Hull, R.Cencic, M.Zhu, P.Northcote, P.Teesdale-Spittle, D.Romo, B.Nagar, J.Pelletier. Functional Mimicry Revealed By the Crystal Structure of An EIF4A:Rna Complex Bound to the Interfacial Inhibitor, Desmethyl Pateamine A. Cell Chem Biol 2021.
ISSN: ESSN 2451-9456
PubMed: 33412110
DOI: 10.1016/J.CHEMBIOL.2020.12.006
Page generated: Tue Oct 1 23:33:37 2024

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