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Sodium in PDB 3tl9: Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex

Enzymatic activity of Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex

All present enzymatic activity of Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex:
3.4.23.16;

Protein crystallography data

The structure of Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex, PDB code: 3tl9 was solved by J.Agniswamy, J.Sayer, I.Weber, J.Louis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 1.32
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 59.414, 86.100, 46.097, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 20.4

Other elements in 3tl9:

The structure of Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex (pdb code 3tl9). 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 Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex, PDB code: 3tl9:

Sodium binding site 1 out of 1 in 3tl9

Go back to Sodium Binding Sites List in 3tl9
Sodium binding site 1 out of 1 in the Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Hiv Protease Model Precursor/Saquinavir Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na403

b:27.0
occ:1.00
 O A:HOH582 2.2 27.8 1.0
O A:HOH564 2.4 29.8 1.0
O A:ASP60 2.4 17.9 1.0
O A:HOH517 2.5 25.0 1.0
O A:HOH531 2.5 32.1 1.0
O A:HOH538 2.6 35.4 1.0
C A:ASP60 3.5 15.5 1.0
N A:ASP60 3.8 15.1 1.0
CA A:ASP60 4.0 15.9 1.0
O A:ARG41 4.1 22.3 1.0
O A:HOH533 4.2 43.1 1.0
CB A:ASP60 4.4 19.9 1.0
N A:ARG41 4.5 25.6 1.0
N A:GLN61 4.5 15.7 1.0
CB A:GLN61 4.5 21.9 1.0
O A:PRO39 4.6 27.7 1.0
C A:TYR59 4.7 13.8 1.0
CD1 A:ILE62 4.7 17.2 1.0
O A:GLN61 4.8 20.6 1.0
CA A:GLY40 4.8 26.6 1.0
C A:GLN61 4.9 17.0 1.0
CA A:GLN61 4.9 17.1 1.0
C A:GLY40 5.0 25.4 1.0

Reference:

J.Agniswamy, J.M.Sayer, I.T.Weber, J.M.Louis. Terminal Interface Conformations Modulate Dimer Stability Prior to Amino Terminal Autoprocessing of Hiv-1 Protease. Biochemistry V. 51 1041 2012.
ISSN: ISSN 0006-2960
PubMed: 22242794
DOI: 10.1021/BI201809S
Page generated: Mon Oct 7 13:18:42 2024

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