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Calcium in PDB 1kic: Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine

Enzymatic activity of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine

All present enzymatic activity of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine:
3.2.2.1;

Protein crystallography data

The structure of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine, PDB code: 1kic was solved by W.Versees, K.Decanniere, E.Van Holsbeke, N.Devroede, J.Steyaert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.350, 74.620, 73.020, 90.00, 98.31, 90.00
R / Rfree (%) 17.6 / 19.4

Other elements in 1kic:

The structure of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine also contains other interesting chemical elements:

Nickel (Ni) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine (pdb code 1kic). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine, PDB code: 1kic:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 1kic

Go back to Calcium Binding Sites List in 1kic
Calcium binding site 1 out of 2 in the Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca328

b:24.8
occ:1.00
 O A:HOH805 2.3 23.7 1.0
OD2 A:ASP261 2.4 19.4 1.0
O3' A:NOS801 2.4 26.6 1.0
O A:THR137 2.4 14.4 1.0
O2' A:NOS801 2.6 32.1 1.0
OD1 A:ASP15 2.6 14.5 1.0
OD2 A:ASP15 2.7 16.3 1.0
CG A:ASP15 3.0 14.4 1.0
CG A:ASP261 3.2 19.2 1.0
OD1 A:ASP261 3.4 20.7 1.0
C A:THR137 3.5 12.5 1.0
C3' A:NOS801 3.5 30.1 1.0
C2' A:NOS801 3.6 30.8 1.0
OD1 A:ASP14 4.1 20.9 0.5
CB A:THR137 4.2 13.3 1.0
CA A:GLY138 4.3 11.6 1.0
N A:GLY138 4.3 12.7 1.0
CB A:ALA10 4.4 13.6 1.0
CB A:ASP15 4.4 14.1 1.0
OD2 A:ASP14 4.4 20.6 0.5
C1' A:NOS801 4.4 31.9 1.0
OG1 A:THR137 4.4 14.3 1.0
ND2 A:ASN186 4.4 13.2 1.0
OD1 A:ASN186 4.4 13.9 1.0
CA A:THR137 4.4 12.6 1.0
CG A:ASP14 4.5 19.3 0.5
C4' A:NOS801 4.6 29.9 1.0
OD2 A:ASP40 4.6 33.3 1.0
CB A:ASP261 4.6 17.8 1.0
O4' A:NOS801 4.7 31.5 1.0
N A:ALA10 4.7 10.9 1.0
N A:ASP15 4.7 15.2 1.0
CA A:ASP15 4.8 14.2 1.0
CG A:ASN186 4.9 13.2 1.0
CB A:ASN12 5.0 19.1 0.5
CB A:ASN12 5.0 19.0 0.5

Calcium binding site 2 out of 2 in 1kic

Go back to Calcium Binding Sites List in 1kic
Calcium binding site 2 out of 2 in the Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Inosine-Adenosine-Guanosine Preferring Nucleoside Hydrolase From Trypanosoma Vivax: ASP10ALA Mutant in Complex with Inosine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca328

b:22.8
occ:1.00
 O B:HOH803 2.3 22.2 1.0
OD2 B:ASP261 2.4 20.0 1.0
O B:THR137 2.5 14.9 1.0
OD2 B:ASP15 2.5 16.6 1.0
O3' B:NOS802 2.5 23.7 1.0
O2' B:NOS802 2.5 26.0 1.0
OD1 B:ASP15 2.6 17.0 1.0
CG B:ASP15 2.8 15.8 1.0
CG B:ASP261 3.3 19.7 1.0
C B:THR137 3.5 14.2 1.0
OD1 B:ASP261 3.5 18.7 1.0
C3' B:NOS802 3.6 23.8 1.0
C2' B:NOS802 3.6 24.0 1.0
OD1 B:ASP14 4.0 18.6 0.5
OD2 B:ASP40 4.1 41.8 1.0
CB B:ASP15 4.2 14.3 1.0
CB B:THR137 4.2 15.2 1.0
N B:GLY138 4.3 14.6 1.0
CA B:GLY138 4.3 15.1 1.0
OD2 B:ASP14 4.4 18.4 0.5
C1' B:NOS802 4.4 25.4 1.0
OG1 B:THR137 4.4 15.6 1.0
ND2 B:ASN186 4.4 14.2 1.0
CB B:ALA10 4.4 16.5 1.0
CG B:ASP40 4.5 41.1 1.0
CA B:THR137 4.5 14.1 1.0
CG B:ASP14 4.5 18.7 0.5
OD1 B:ASN186 4.5 17.5 1.0
CB B:ASN12 4.5 22.4 1.0
C4' B:NOS802 4.6 23.9 1.0
N B:ASP15 4.6 15.3 1.0
OD1 B:ASP40 4.6 42.1 1.0
CB B:ASP261 4.6 18.6 1.0
N B:ALA10 4.7 13.7 1.0
CA B:ASP15 4.7 13.6 1.0
O4' B:NOS802 4.7 24.1 1.0
CG B:ASN186 4.9 15.8 1.0

Reference:

W.Versees, K.Decanniere, E.Van Holsbeke, N.Devroede, J.Steyaert. Enzyme-Substrate Interactions in the Purine-Specific Nucleoside Hydrolase From Trypanosoma Vivax. J.Biol.Chem. V. 277 15938 2002.
ISSN: ISSN 0021-9258
PubMed: 11854281
DOI: 10.1074/JBC.M111735200
Page generated: Thu Jul 11 11:23:03 2024

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