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Sodium in PDB 3b1p: Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine

Enzymatic activity of Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine

All present enzymatic activity of Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine:
2.7.1.143;

Protein crystallography data

The structure of Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine, PDB code: 3b1p was solved by Y.Yasutake, H.Ota, E.Hino, S.Sakasegawa, T.Tamura, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.72 / 1.70
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 74.875, 83.853, 52.864, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 21.7

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine (pdb code 3b1p). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine, PDB code: 3b1p:

Sodium binding site 1 out of 1 in 3b1p

Go back to Sodium Binding Sites List in 3b1p
Sodium binding site 1 out of 1 in the Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Burkholderia Thailandensis Nucleoside Kinase (Bthnk) in Complex with Adp-Inosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na327

b:18.0
occ:1.00
 O A:ARG213 2.2 17.5 1.0
O A:ALA186 2.3 14.1 1.0
O A:HOH330 2.4 19.6 1.0
O A:GLU184 2.4 17.3 1.0
O A:ILE183 2.5 15.0 1.0
C A:GLU184 3.1 16.2 1.0
C A:ALA186 3.4 13.4 1.0
C A:ARG213 3.5 15.6 1.0
N A:ALA186 3.5 14.8 1.0
C A:ILE183 3.6 15.5 1.0
CA A:GLU184 3.6 16.7 0.5
CA A:GLU184 3.6 16.6 0.5
C A:LEU185 3.8 16.4 1.0
CG1 A:VAL214 3.9 17.9 1.0
CA A:ALA186 3.9 15.2 1.0
N A:LEU185 3.9 15.9 1.0
N A:GLU184 4.1 15.3 1.0
O A:HOH398 4.2 27.9 1.0
CA A:VAL214 4.3 14.2 1.0
O A:LEU185 4.3 15.9 1.0
N A:VAL214 4.4 14.8 1.0
CA A:LEU185 4.4 15.9 1.0
CB A:ARG213 4.4 17.2 1.0
CA A:ARG213 4.4 16.2 1.0
N A:THR187 4.5 11.8 1.0
CB A:ALA186 4.5 15.1 1.0
CB A:VAL214 4.8 13.6 1.0
CA A:THR187 4.8 12.0 1.0
CA A:ILE183 4.9 14.7 1.0
CB A:GLU184 5.0 16.7 0.5

Reference:

Y.Yasutake, H.Ota, E.Hino, S.Sakasegawa, T.Tamura. Structures of Burkholderia Thailandensis Nucleoside Kinase: Implications For the Catalytic Mechanism and Nucleoside Selectivity Acta Crystallogr.,Sect.D V. 67 945 2011.
ISSN: ISSN 0907-4449
PubMed: 22101821
DOI: 10.1107/S0907444911038777
Page generated: Mon Oct 7 05:55:03 2024

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