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Sodium in PDB 2eek: Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine

Enzymatic activity of Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine

All present enzymatic activity of Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine:
3.4.21.4;

Protein crystallography data

The structure of Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine, PDB code: 2eek was solved by D.Iyaguchi, E.Toyota, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.85
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.213, 59.184, 63.736, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 22.4

Other elements in 2eek:

The structure of Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine (pdb code 2eek). 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 Atlantic Cod Trypsin Complexed with Benzamidine, PDB code: 2eek:

Sodium binding site 1 out of 1 in 2eek

Go back to Sodium Binding Sites List in 2eek
Sodium binding site 1 out of 1 in the Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine


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 Atlantic Cod Trypsin Complexed with Benzamidine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na501

b:26.6
occ:1.00
 NE A:ARG90 3.5 37.3 1.0
N A:ARG90 3.8 19.7 1.0
NH2 A:ARG90 3.8 39.3 1.0
CB A:ARG90 4.1 22.2 1.0
CZ A:ARG90 4.1 38.3 1.0
CG A:ARG90 4.4 27.2 1.0
CA A:ARG90 4.5 18.5 1.0
O A:VAL88 4.5 22.4 1.0
CD A:ARG90 4.6 33.0 1.0
CA A:ILE89 4.6 20.0 1.0
O A:ARG90 4.6 15.5 1.0
CE1 A:TYR59 4.7 23.2 1.0
C A:ILE89 4.7 19.8 1.0
O A:HOH525 4.7 25.1 1.0
CG2 A:ILE89 5.0 21.0 1.0

Reference:

D.Iyaguchi, E.Toyota. Crystal Structure of Atlantic Cod Trypsin Complexed with Benzamidine To Be Published.
Page generated: Mon Oct 7 02:18:18 2024

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