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Sodium in PDB 2j9n: Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts

Enzymatic activity of Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts

All present enzymatic activity of Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts:
3.4.21.4;

Protein crystallography data

The structure of Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts, PDB code: 2j9n was solved by R.Viola, P.Carman, J.Walsh, E.Miller, M.Benning, D.Frankel, A.Mcpherson, R.Cudney, B.Rupp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.09 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.924, 56.695, 66.054, 90.00, 90.00, 90.00
R / Rfree (%) 15.4 / 17.6

Other elements in 2j9n:

The structure of Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts (pdb code 2j9n). 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 Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts, PDB code: 2j9n:

Sodium binding site 1 out of 1 in 2j9n

Go back to Sodium Binding Sites List in 2j9n
Sodium binding site 1 out of 1 in the Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Robotically Harvested Trypsin Complexed with Benzamidine Containing Polypeptide Mediated Crystal Contacts within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1240

b:16.8
occ:1.00
 O A:HOH2075 2.9 22.9 1.0
N A:THR122 3.2 16.2 1.0
N A:SER123 3.3 15.2 1.0
CE A:LYS201 3.7 20.6 1.0
CB A:THR122 3.8 17.4 1.0
CA A:THR122 3.9 15.6 1.0
CG A:LYS201 3.9 16.2 1.0
O A:SER123 4.0 16.0 1.0
CB A:SER123 4.0 19.8 1.0
CD A:LYS201 4.0 18.1 1.0
C A:THR122 4.1 17.7 1.0
CA A:SER123 4.1 17.5 1.0
C A:PRO121 4.2 16.4 1.0
CA A:PRO121 4.2 13.4 1.0
O A:HOH2114 4.3 22.9 1.0
NZ A:LYS201 4.3 23.7 1.0
OG1 A:THR122 4.4 20.1 1.0
OG A:SER123 4.4 26.9 1.0
C A:SER123 4.5 13.0 1.0
CB A:PRO121 4.6 15.0 1.0
NE2 A:GLN203 4.8 11.4 1.0
CB A:LYS201 4.9 13.6 1.0
O A:HOH2164 4.9 34.5 1.0
CG2 A:THR122 5.0 20.8 1.0

Reference:

R.Viola, P.Carman, J.Walsh, E.Miller, M.Benning, D.Frankel, A.Mcpherson, R.Cudney, B.Rupp. Operator Assisted Harvesting of Protein Crystals Using A Universal Micromanipulation Robot. J.Appl.Crystallogr. V. 40 539 2007.
ISSN: ISSN 0021-8898
PubMed: 19461845
DOI: 10.1107/S0021889807012149
Page generated: Mon Oct 7 02:58:46 2024

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