Atomistry » Magnesium » PDB 5vw9-5w4u » 5w2i
Atomistry »
  Magnesium »
    PDB 5vw9-5w4u »
      5w2i »

Magnesium in PDB 5w2i: Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp

Enzymatic activity of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp

All present enzymatic activity of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp:
2.7.1.151;

Protein crystallography data

The structure of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp, PDB code: 5w2i was solved by H.Wang, S.B.Shears, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.03 / 1.60
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.090, 78.090, 86.320, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 21.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp (pdb code 5w2i). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp, PDB code: 5w2i:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5w2i

Go back to Magnesium Binding Sites List in 5w2i
Magnesium binding site 1 out of 2 in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp


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 the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg701

b:13.7
occ:1.00
 O A:HOH855 2.0 27.5 1.0
O A:HOH906 2.0 18.8 1.0
O3B A:ADP703 2.0 19.8 1.0
O A:HOH826 2.0 22.4 1.0
O2A A:ADP703 2.1 13.7 1.0
OD2 A:ASP385 2.1 14.5 1.0
PB A:ADP703 3.2 18.3 1.0
CG A:ASP385 3.2 11.5 1.0
PA A:ADP703 3.3 13.5 1.0
O3A A:ADP703 3.6 18.2 1.0
O A:HOH928 3.6 30.9 1.0
MG A:MG702 3.7 17.6 1.0
O A:HOH829 3.8 18.1 1.0
O1B A:ADP703 3.8 22.8 1.0
CB A:ASP385 3.8 8.7 1.0
OD2 A:ASP144 4.0 17.9 1.0
OD1 A:ASP385 4.2 14.4 1.0
CD1 A:LEU179 4.2 13.2 1.0
O1A A:ADP703 4.3 14.3 1.0
O5' A:ADP703 4.3 16.1 1.0
C5' A:ADP703 4.4 16.7 1.0
O A:HOH862 4.4 33.8 1.0
O2B A:ADP703 4.5 23.1 1.0
OG A:SER252 4.5 12.5 1.0
O A:HOH887 4.8 32.2 1.0

Magnesium binding site 2 out of 2 in 5w2i

Go back to Magnesium Binding Sites List in 5w2i
Magnesium binding site 2 out of 2 in the Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Core Catalytic Domain of Human Inositol Phosphate Multikinase Soaked with C4-Analogue of Ptdins(4,5)P2 and Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg702

b:17.6
occ:1.00
 O A:HOH928 2.0 30.9 1.0
O A:HOH913 2.1 29.8 1.0
OD2 A:ASP385 2.3 14.5 1.0
O A:HOH887 2.3 32.2 1.0
O1B A:ADP703 2.4 22.8 1.0
OD1 A:ASP385 2.4 14.4 1.0
CG A:ASP385 2.7 11.5 1.0
O A:HOH801 2.9 34.7 1.0
O3B A:ADP703 3.2 19.8 1.0
PB A:ADP703 3.3 18.3 1.0
O A:HOH906 3.6 18.8 1.0
MG A:MG701 3.7 13.7 1.0
O A:HOH886 3.8 46.3 1.0
OE1 A:GLN78 4.1 29.3 1.0
CB A:ASP385 4.2 8.7 1.0
NE2 A:GLN78 4.3 35.9 1.0
O41 A:I3P704 4.4 14.7 1.0
O42 A:I3P704 4.4 18.8 1.0
O3A A:ADP703 4.4 18.2 1.0
O2B A:ADP703 4.5 23.1 1.0
O A:ALA250 4.6 9.4 1.0
CD A:GLN78 4.6 27.8 1.0
NZ A:LYS75 4.6 15.8 1.0
O2A A:ADP703 4.7 13.7 1.0
P4 A:I3P704 4.9 17.9 1.0
O A:HOH829 5.0 18.1 1.0
CB A:ALA387 5.0 13.4 1.0

Reference:

H.Wang, S.B.Shears. Structural Features of Human Inositol Phosphate Multikinase Rationalize Its Inositol Phosphate Kinase and Phosphoinositide 3-Kinase Activities. J. Biol. Chem. V. 292 18192 2017.
ISSN: ESSN 1083-351X
PubMed: 28882892
DOI: 10.1074/JBC.M117.801845
Page generated: Mon Sep 30 06:27:12 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy