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Magnesium in PDB 3lkm: 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp

Enzymatic activity of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp

All present enzymatic activity of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp:
2.7.11.7;

Protein crystallography data

The structure of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp, PDB code: 3lkm was solved by Q.Ye, Z.Jia, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.28 / 1.60
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 76.224, 83.777, 44.364, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 22.4

Other elements in 3lkm:

The structure of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp (pdb code 3lkm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp, PDB code: 3lkm:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 3lkm

Go back to Magnesium Binding Sites List in 3lkm
Magnesium binding site 1 out of 3 in the 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg901

b:24.1
occ:1.00
 O1P A:AMP907 2.7 14.6 1.0
O A:HOH115 2.7 27.3 1.0
OE1 A:GLN758 2.7 10.5 1.0
O3' A:AMP907 2.7 13.4 1.0
C3' A:AMP907 3.3 12.0 1.0
CD A:GLN758 3.6 10.1 1.0
NE2 A:GLN758 3.8 11.3 1.0
O A:HOH79 3.9 16.9 1.0
O4 A:PO4906 3.9 17.2 1.0
P A:AMP907 4.0 14.8 1.0
C5' A:AMP907 4.0 13.3 1.0
O5' A:AMP907 4.1 13.8 1.0
C4' A:AMP907 4.2 12.2 1.0
CE2 A:PHE720 4.2 11.3 1.0
O A:HOH86 4.3 19.9 1.0
CZ A:PHE720 4.4 9.9 1.0
C2' A:AMP907 4.6 11.3 1.0
NZ A:LYS722 4.7 22.4 1.0
O2P A:AMP907 4.7 15.6 1.0
CA A:GLY589 4.8 15.6 1.0
O A:HOH133 4.9 18.9 1.0
CG A:GLN758 4.9 8.7 1.0
OD2 A:ASP766 5.0 14.0 1.0

Magnesium binding site 2 out of 3 in 3lkm

Go back to Magnesium Binding Sites List in 3lkm
Magnesium binding site 2 out of 3 in the 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:8.0
occ:1.00
 OD1 A:ASP766 2.6 12.0 1.0
O A:HOH100 2.7 20.9 1.0
O A:HOH38 2.8 11.5 1.0
O A:PRO767 2.8 7.7 1.0
OE1 A:GLN768 2.8 9.9 1.0
O A:HOH117 2.9 21.7 1.0
CG A:ASP766 3.6 10.6 1.0
CE A:MET666 3.6 10.9 1.0
C A:PRO767 3.8 7.4 1.0
CD A:GLN768 3.9 8.7 1.0
O A:HOH27 4.0 17.1 1.0
O A:ASP766 4.0 7.8 1.0
OD2 A:ASP766 4.1 14.0 1.0
CB A:GLN768 4.1 7.6 1.0
CA A:GLN768 4.2 7.3 1.0
O A:HOH93 4.3 27.7 1.0
C A:ASP766 4.3 7.7 1.0
O A:HOH152 4.3 22.0 1.0
N A:GLN768 4.4 7.1 1.0
O1 A:PO4906 4.4 18.8 1.0
CG A:GLN768 4.6 8.2 1.0
CA A:ASP766 4.7 8.3 1.0
CB A:ASP766 4.8 9.1 1.0
N A:PRO767 4.8 7.6 1.0
NE2 A:GLN768 4.8 9.8 1.0
OD2 A:ASP756 4.9 14.0 1.0
CA A:PRO767 4.9 7.7 1.0
SD A:MET666 4.9 9.9 1.0

Magnesium binding site 3 out of 3 in 3lkm

Go back to Magnesium Binding Sites List in 3lkm
Magnesium binding site 3 out of 3 in the 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of 1.6 Angstrom Crystal Structure of the Alpha-Kinase Domain of Myosin Heavy Chain Kinase A Complex with Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg903

b:10.5
occ:1.00
 O A:GLY778 2.7 11.8 1.0
O A:HOH82 2.8 22.4 1.0
O A:HOH50 2.8 18.5 1.0
O A:GLY776 2.8 12.2 1.0
O A:HOH273 2.9 35.9 1.0
O A:GLY774 3.0 15.4 1.0
N A:GLY776 3.6 14.5 1.0
O A:HOH134 3.6 27.4 1.0
C A:GLY776 3.6 12.8 1.0
C A:GLY778 3.7 11.8 1.0
O A:HOH45 3.8 14.9 1.0
CB A:ASN781 3.9 9.0 1.0
CA A:GLY776 4.0 13.4 1.0
C A:LYS775 4.1 14.9 1.0
N A:GLY778 4.1 11.6 1.0
C A:GLY774 4.1 15.3 1.0
CA A:LYS775 4.4 15.7 1.0
CA A:GLY778 4.4 11.8 1.0
ND2 A:ASN781 4.5 9.3 1.0
OE2 A:GLU662 4.5 17.9 1.0
C A:PHE777 4.6 11.6 1.0
CG A:ASN781 4.6 8.6 1.0
O A:ASN781 4.6 9.3 1.0
N A:PHE777 4.7 11.8 1.0
N A:LEU779 4.7 11.5 1.0
N A:LYS775 4.7 15.3 1.0
O A:LYS775 4.8 14.9 1.0
CA A:LEU779 4.9 11.3 1.0
N A:ASN781 4.9 8.6 1.0
CA A:ASN781 4.9 8.8 1.0
O A:PHE777 5.0 12.0 1.0

Reference:

Q.Ye, S.W.Crawley, Y.Yang, G.P.Cote, Z.Jia. Crystal Structure of the {Alpha}-Kinase Domain of Dictyostelium Myosin Heavy Chain Kinase A. Sci.Signal. V. 3 RA17 2010.
ISSN: ESSN 1937-9145
PubMed: 20197546
DOI: 10.1126/SCISIGNAL.2000525
Page generated: Mon Aug 11 00:09:52 2025

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