Atomistry » Magnesium » PDB 5mps-5n5r » 5mwl
Atomistry »
  Magnesium »
    PDB 5mps-5n5r »
      5mwl »

Magnesium in PDB 5mwl: Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5

Enzymatic activity of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5

All present enzymatic activity of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5:
2.7.1.158;

Protein crystallography data

The structure of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5, PDB code: 5mwl was solved by E.Franco-Echevarria, J.Sanz-Aparicio, B.Gonzalez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 70.38 / 3.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 64.623, 140.758, 68.662, 90.00, 106.53, 90.00
R / Rfree (%) 22.5 / 24.5

Other elements in 5mwl:

The structure of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5 also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5 (pdb code 5mwl). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5, PDB code: 5mwl:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5mwl

Go back to Magnesium Binding Sites List in 5mwl
Magnesium binding site 1 out of 2 in the Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg505

b:77.5
occ:0.80
O43 A:5MY502 2.4 0.0 1.0
O1B A:ATP501 2.7 0.2 1.0
O1G A:ATP501 3.1 0.7 1.0
OD2 A:ASP439 3.1 0.2 1.0
OD1 A:ASP439 3.3 0.6 1.0
CG A:ASP439 3.6 0.6 1.0
P3 A:5MY502 3.6 0.1 1.0
CD A:LYS19 3.7 0.9 1.0
OD1 A:ASP437 3.7 0.4 1.0
CB A:LYS19 3.8 0.1 1.0
O23 A:5MY502 3.9 0.6 1.0
PB A:ATP501 3.9 0.2 1.0
NZ A:LYS441 3.9 1.0 1.0
O2B A:ATP501 4.2 0.1 1.0
PG A:ATP501 4.2 0.1 1.0
CG A:LYS19 4.3 0.3 1.0
O3B A:ATP501 4.3 0.4 1.0
O33 A:5MY502 4.6 1.0 1.0
O13 A:5MY502 4.7 0.5 1.0
NH2 A:ARG33 4.8 97.3 1.0
O2G A:ATP501 4.8 0.0 1.0
CG A:ASP437 4.8 0.1 1.0
CE A:LYS19 4.9 0.0 1.0
CE A:LYS441 4.9 0.8 1.0
NZ A:LYS19 5.0 0.9 1.0

Magnesium binding site 2 out of 2 in 5mwl

Go back to Magnesium Binding Sites List in 5mwl
Magnesium binding site 2 out of 2 in the Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase From M. Musculus in Complex with Atp and IP5 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg506

b:0.4
occ:1.00
OD2 A:ASP437 2.4 0.7 1.0
OG A:SER402 2.6 65.9 1.0
O2A A:ATP501 2.7 0.1 1.0
O3' A:ATP501 3.0 0.3 1.0
CG A:ASP437 3.4 0.1 1.0
O3G A:ATP501 3.4 0.0 1.0
C3' A:ATP501 3.6 0.3 1.0
CB A:ASP437 3.7 0.6 1.0
CB A:SER402 3.8 64.0 1.0
OE2 A:GLU136 3.9 87.7 1.0
PA A:ATP501 4.2 0.7 1.0
O3B A:ATP501 4.3 0.4 1.0
PG A:ATP501 4.5 0.1 1.0
OD1 A:ASP437 4.5 0.4 1.0
O1A A:ATP501 4.7 0.1 1.0
C2' A:ATP501 4.7 0.4 1.0
C4' A:ATP501 4.8 0.8 1.0
C5' A:ATP501 4.9 1.0 1.0
O5' A:ATP501 4.9 0.1 1.0
CE A:LYS138 4.9 78.5 1.0
N A:SER402 5.0 65.3 1.0

Reference:

E.Franco-Echevarria, J.Sanz-Aparicio, C.A.Brearley, J.M.Gonzalez-Rubio, B.Gonzalez. The Crystal Structure of Mammalian Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase Reveals A New Zinc-Binding Site and Key Features For Protein Function. J. Biol. Chem. V. 292 10534 2017.
ISSN: ESSN 1083-351X
PubMed: 28450399
DOI: 10.1074/JBC.M117.780395
Page generated: Mon Dec 14 20:54:26 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy