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Calcium in PDB 8gm5: Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop

Enzymatic activity of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop

All present enzymatic activity of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop:
2.7.11.20;

Protein crystallography data

The structure of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop, PDB code: 8gm5 was solved by A.Piserchio, E.A.Isiorho, K.N.Dalby, R.Ghose, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.94 / 2.12
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 80.909, 61.041, 88.958, 90, 111.26, 90
R / Rfree (%) 18.1 / 22.5

Other elements in 8gm5:

The structure of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop (pdb code 8gm5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop, PDB code: 8gm5:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 8gm5

Go back to Calcium Binding Sites List in 8gm5
Calcium binding site 1 out of 2 in the Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca201

b:26.7
occ:1.00
 OD1 B:ASP95 2.3 38.9 1.0
OD1 B:ASP93 2.3 27.8 1.0
O B:TYR99 2.3 31.9 1.0
OE2 B:GLU104 2.3 32.3 1.0
OD1 B:ASN97 2.4 24.8 1.0
OE1 B:GLU104 2.4 34.7 1.0
O A:HOH1007 2.5 32.2 1.0
CD B:GLU104 2.7 29.7 1.0
CG B:ASP95 3.2 35.8 1.0
CG B:ASN97 3.4 28.5 1.0
CG B:ASP93 3.5 26.0 1.0
C B:TYR99 3.5 24.2 1.0
OD2 B:ASP95 3.8 30.3 1.0
N B:TYR99 4.1 30.3 1.0
CG B:GLU104 4.2 25.4 1.0
ND2 B:ASN97 4.2 23.5 1.0
N B:ASN97 4.2 24.6 1.0
N B:ASP95 4.2 25.6 1.0
OD2 B:ASP93 4.3 30.5 1.0
CB B:ASP95 4.3 22.0 1.0
CA B:TYR99 4.3 27.2 1.0
CA B:ASP93 4.3 30.8 1.0
CB B:ASN97 4.4 29.9 1.0
CB B:ASP93 4.5 30.5 1.0
N B:ILE100 4.5 24.8 1.0
N B:GLY96 4.5 27.2 1.0
C B:ASP93 4.5 29.1 1.0
N B:LYS94 4.6 25.4 1.0
CA B:ILE100 4.6 21.7 1.0
CA B:ASP95 4.7 23.0 1.0
OD1 A:ASP208 4.7 46.1 1.0
CA B:ASN97 4.7 23.6 1.0
N B:SER101 4.7 31.9 1.0
CB B:TYR99 4.8 27.3 1.0
N B:GLY98 4.8 32.2 1.0
NZ A:LYS192 4.8 26.4 1.0
C B:ASP95 4.8 29.7 1.0
C B:ASN97 5.0 34.3 1.0

Calcium binding site 2 out of 2 in 8gm5

Go back to Calcium Binding Sites List in 8gm5
Calcium binding site 2 out of 2 in the Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Functional Construct of the Eukaryotic Elongation Factor 2 Kinase Bound to Calmodulin, Adp and to the A-484954 Inhibitor and Showing Two Conformations For the 498-520 Loop within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca202

b:39.3
occ:1.00
 OD1 B:ASP131 2.2 54.4 1.0
O B:GLN135 2.2 41.7 1.0
OD1 B:ASP133 2.4 50.5 1.0
OD1 B:ASP129 2.4 40.2 1.0
OE1 B:GLU140 2.5 33.4 1.0
OE2 B:GLU140 2.6 36.0 1.0
CD B:GLU140 2.9 35.2 1.0
CG B:ASP133 3.1 50.5 1.0
CG B:ASP131 3.1 61.0 1.0
OD2 B:ASP133 3.3 41.9 1.0
C B:GLN135 3.4 32.0 1.0
OD2 B:ASP131 3.4 70.6 1.0
CG B:ASP129 3.6 40.7 1.0
N B:ASN137 4.2 29.5 1.0
N B:VAL136 4.2 30.6 1.0
CA B:VAL136 4.3 33.1 1.0
N B:GLN135 4.3 38.8 1.0
CA B:GLN135 4.4 33.9 1.0
CA B:ASP129 4.4 44.8 1.0
CB B:ASP133 4.4 46.5 1.0
CG B:GLU140 4.4 23.0 1.0
OD2 B:ASP129 4.4 46.1 1.0
N B:ASP133 4.5 44.2 1.0
CB B:ASP131 4.5 53.1 1.0
CB B:ASP129 4.5 34.5 1.0
N B:ASP131 4.6 39.9 1.0
O B:HOH307 4.6 45.9 1.0
C B:VAL136 4.7 28.8 1.0
CG B:ASN137 4.7 30.6 1.0
ND2 B:ASN137 4.7 29.3 1.0
N B:GLY132 4.8 40.4 1.0
N B:ILE130 4.8 44.1 1.0
C B:ASP129 4.9 51.4 1.0
CA B:ASP133 4.9 37.5 1.0
CB B:GLN135 4.9 40.4 1.0
CB B:ASN137 4.9 26.0 1.0
CA B:ASP131 5.0 40.7 1.0

Reference:

A.Piserchio, E.A.Isiorho, K.N.Dalby, R.Ghose. Structure of the Complex Between Calmodulin and A Functional Construct of Eukaryotic Elongation Factor 2 Kinase Bound to An Atp-Competitive Inhibitor. J.Biol.Chem. 04813 2023.
ISSN: ESSN 1083-351X
PubMed: 37172726
DOI: 10.1016/J.JBC.2023.104813
Page generated: Fri Jul 19 09:13:58 2024

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