Magnesium in PDB 5kb5: Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate

Enzymatic activity of Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate

All present enzymatic activity of Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate:
2.7.1.20;

Protein crystallography data

The structure of Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate, PDB code: 5kb5 was solved by R.R.Oliveira, R.M.Neto, C.C.Polo, C.C.C.Tonoli, M.T.Murakami, K.G.Franchini, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.63 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.264, 73.559, 84.330, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 20

Other elements in 5kb5:

The structure of Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate also contains other interesting chemical elements:

Potassium (K) 1 atom
Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate (pdb code 5kb5). 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 Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate, PDB code: 5kb5:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5kb5

Go back to Magnesium Binding Sites List in 5kb5
Magnesium binding site 1 out of 2 in the Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate


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 Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg405

b:24.2
occ:1.00
 O A:HOH554 2.0 29.4 1.0
O A:HOH517 2.3 25.3 1.0
O A:HOH514 2.3 23.8 1.0
O2B A:ADP402 2.3 18.9 1.0
O A:HOH555 2.4 25.2 1.0
PB A:ADP402 3.5 18.4 1.0
O3B A:ADP402 3.9 17.8 1.0
O A:HOH527 3.9 16.9 1.0
O A:HOH607 3.9 37.5 1.0
O1B A:ADP402 4.0 19.4 1.0
O A:HOH608 4.1 22.4 1.0
OE2 A:GLU242 4.2 26.3 1.0
O A:SER214 4.2 17.0 1.0
OE1 A:GLU242 4.4 21.9 1.0
O A:HOH519 4.4 19.2 1.0
OD1 A:ASP316 4.5 18.2 1.0
CA A:GLY315 4.5 14.4 1.0
O5' A:ADN401 4.6 20.3 1.0
NH1 A:ARG148 4.6 33.6 1.0
O A:HOH563 4.6 26.2 1.0
O3A A:ADP402 4.7 16.5 1.0
CD A:GLU242 4.7 21.1 1.0
ND2 A:ASN239 4.8 21.0 1.0
OD1 A:ASN212 4.8 16.0 1.0
C A:GLY315 4.8 14.2 1.0
NE2 A:GLN54 4.9 27.8 1.0
N A:ASP316 4.9 14.6 1.0
N A:GLY315 5.0 14.3 1.0

Magnesium binding site 2 out of 2 in 5kb5

Go back to Magnesium Binding Sites List in 5kb5
Magnesium binding site 2 out of 2 in the Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate


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 Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg406

b:31.6
occ:1.00
 O A:HOH534 2.2 23.1 1.0
O A:HOH568 2.2 44.3 1.0
O1A A:ADP402 2.3 16.6 1.0
O A:HOH538 2.3 31.3 1.0
O A:HOH522 2.5 19.0 1.0
O A:HOH512 3.6 44.2 1.0
O1B A:ADP402 3.7 19.4 1.0
PA A:ADP402 3.7 17.4 1.0
OG1 A:THR311 4.1 20.7 1.0
CB A:THR311 4.2 19.9 1.0
O3B A:ADP402 4.2 17.8 1.0
PB A:ADP402 4.2 18.4 1.0
ND2 A:ASN52 4.3 29.7 1.0
O5' A:ADP402 4.3 15.6 1.0
O3A A:ADP402 4.3 16.5 1.0
N7 A:ADP402 4.4 17.6 1.0
OD1 A:ASN52 4.5 28.2 1.0
C8 A:ADP402 4.6 17.4 1.0
NH1 A:ARG148 4.7 33.6 1.0
CG2 A:THR311 4.7 21.7 1.0
O A:THR311 4.8 17.2 1.0
O2A A:ADP402 4.8 15.3 1.0
CG A:ASN52 4.8 28.4 1.0
O A:GLY146 4.9 27.1 1.0
CZ A:ARG148 4.9 30.6 1.0
O A:HOH616 5.0 33.8 1.0

Reference:

R.R.Oliveira, R.M.Neto, C.C.Polo, C.C.C.Tonoli, M.T.Murakami, K.G.Franchini. Crystal Structure of the Adenosine Kinase From Mus Musculus in Complex with Adenosine and Adenosine-Diphosphate To Be Published.
Page generated: Mon Dec 14 20:37:28 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy