Potassium in PDB 7zko: X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta

Enzymatic activity of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta

All present enzymatic activity of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta:
3.4.21.5;

Protein crystallography data

The structure of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta, PDB code: 7zko was solved by R.Troisi, F.Sica, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.02 / 2.50
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 75.87, 75.87, 146.9, 90, 90, 120
R / Rfree (%) 24.6 / 29.5

Other elements in 7zko:

The structure of X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta also contains other interesting chemical elements:

Sodium (Na) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta (pdb code 7zko). 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 Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta, PDB code: 7zko:

Potassium binding site 1 out of 1 in 7zko

Go back to Potassium Binding Sites List in 7zko
Potassium binding site 1 out of 1 in the X-Ray Structure of the Complex Between Human Alpha Thrombin and A Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta


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 Pseudo-Cyclic Thrombin Binding Aptamer (Tba-Nnp/Ddp) - Crystal Form Delta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K103

b:90.3
occ:1.00
 O6 A:DG1 2.7 81.8 1.0
O6 A:DG5 2.9 78.7 1.0
O6 A:DG10 2.9 80.2 1.0
O6 A:DG15 2.9 65.4 1.0
O6 A:DG11 2.9 89.6 1.0
O6 A:DG14 2.9 74.3 1.0
O6 A:DG2 3.0 69.1 1.0
C6 A:DG1 3.5 79.7 1.0
C6 A:DG10 3.6 72.8 1.0
O6 A:DG6 3.6 105.8 1.0
C6 A:DG14 3.7 69.0 1.0
N1 A:DG1 3.7 78.2 1.0
N1 A:DG15 3.7 53.8 1.0
N1 A:DG10 3.7 67.1 1.0
C6 A:DG15 3.7 57.8 1.0
C6 A:DG5 3.7 87.4 1.0
O A:HOH201 3.9 102.9 1.0
N1 A:DG14 3.9 67.4 1.0
C6 A:DG11 3.9 82.1 1.0
C6 A:DG2 3.9 67.0 1.0
N1 A:DG5 4.1 85.8 1.0
N1 A:DG2 4.1 65.0 1.0
N1 A:DG6 4.1 103.0 1.0
N1 A:DG11 4.2 80.7 1.0
C6 A:DG6 4.3 104.2 1.0
C36 A:JL0101 4.5 56.9 1.0
C35 A:JL0101 4.7 60.9 1.0
C5 A:DG14 4.8 66.1 1.0
C5 A:DG1 4.8 75.2 1.0
C37 A:JL0101 4.9 58.0 1.0
C2 A:DG1 4.9 80.0 1.0
C5 A:DG10 4.9 73.7 1.0
C2 A:DG10 4.9 67.4 1.0
C2 A:DG15 5.0 58.9 1.0
C5 A:DG5 5.0 88.5 1.0

Reference:

R.Troisi, C.Riccardi, K.Perez De Carvasal, M.Smietana, F.Morvan, P.Del Vecchio, D.Montesarchio, F.Sica. A Terminal Functionalization Strategy Reveals Unusual Binding Abilities of Anti-Thrombin Anticoagulant Aptamers. Mol Ther Nucleic Acids V. 30 585 2022.
ISSN: ISSN 2162-2531
PubMed: 36457701
DOI: 10.1016/J.OMTN.2022.11.007
Page generated: Wed Apr 5 10:31:05 2023

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