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Potassium in PDB 5cmx: X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer

Enzymatic activity of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer

All present enzymatic activity of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer:
3.4.21.5;

Protein crystallography data

The structure of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer, PDB code: 5cmx was solved by I.Russo Krauss, A.Pica, V.Napolitano, F.Sica, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 65.67 / 2.98
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.319, 124.420, 40.440, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 23.1

Potassium Binding Sites:

The binding sites of Potassium atom in the X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer (pdb code 5cmx). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer, PDB code: 5cmx:

Potassium binding site 1 out of 1 in 5cmx

Go back to Potassium Binding Sites List in 5cmx
Potassium binding site 1 out of 1 in the X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Duplex/Quadruplex 31-Mer Dna Aptamer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K101

b:60.6
occ:1.00
 O6 A:DG18 2.4 43.9 1.0
O6 A:DG14 2.6 39.0 1.0
O6 A:DG9 2.6 47.1 1.0
O6 A:DG13 2.6 42.8 1.0
O6 A:DG22 2.7 54.3 1.0
O6 A:DG10 2.8 49.8 1.0
O6 A:DG23 2.8 44.1 1.0
O6 A:DG19 3.0 36.0 1.0
C6 A:DG13 3.4 40.7 1.0
C6 A:DG9 3.5 46.7 1.0
C6 A:DG18 3.5 43.4 1.0
C6 A:DG22 3.6 46.8 1.0
C6 A:DG10 3.7 48.6 1.0
C6 A:DG14 3.7 40.4 1.0
N1 A:DG13 3.7 39.2 1.0
N2 A:DG16 3.7 33.5 1.0
N1 A:DG9 3.8 45.8 1.0
C6 A:DG23 3.8 47.7 1.0
C6 A:DG19 3.9 37.2 1.0
N1 A:DG22 4.0 44.8 1.0
N1 A:DG10 4.1 47.2 1.0
N1 A:DG14 4.1 41.7 1.0
O A:HOH202 4.1 38.9 1.0
N1 A:DG23 4.2 47.1 1.0
N1 A:DG18 4.2 42.9 1.0
N1 A:DG19 4.2 38.1 1.0
C5 A:DG13 4.5 39.7 1.0
C5 A:DG18 4.6 43.5 1.0
C2 A:DG16 4.6 32.5 1.0
C5 A:DG22 4.7 45.5 1.0
C5 A:DG9 4.8 45.2 1.0
C5 A:DG10 4.9 49.1 1.0
C2 A:DG13 4.9 39.1 1.0
N7 A:DG18 5.0 44.4 1.0
C5 A:DG14 5.0 40.6 1.0

Reference:

I.Russo Krauss, V.Spiridonova, A.Pica, V.Napolitano, F.Sica. Different Duplex/Quadruplex Junctions Determine the Properties of Anti-Thrombin Aptamers with Mixed Folding. Nucleic Acids Res. V. 44 983 2016.
ISSN: ESSN 1362-4962
PubMed: 26673709
DOI: 10.1093/NAR/GKV1384
Page generated: Mon Aug 12 13:08:40 2024

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