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Sodium in PDB 5dll: Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4

Enzymatic activity of Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4

All present enzymatic activity of Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4:
3.4.11.2;

Protein crystallography data

The structure of Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4, PDB code: 5dll was solved by D.Borek, J.Raczynska, I.Dubrovska, S.Grimshaw, G.Minasov, L.Shuvalova, K.Kwon, W.F.Anderson, Z.Otwinowski, Center For Structural Genomics Ofinfectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 65.53 / 2.51
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 75.670, 75.670, 161.042, 90.00, 90.00, 120.00
R / Rfree (%) 19.3 / 26

Other elements in 5dll:

The structure of Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4 also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Chlorine (Cl) 15 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4 (pdb code 5dll). 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 Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4, PDB code: 5dll:

Sodium binding site 1 out of 1 in 5dll

Go back to Sodium Binding Sites List in 5dll
Sodium binding site 1 out of 1 in the Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na917

b:57.0
occ:1.00
 O A:THR103 2.3 49.1 1.0
O A:VAL41 2.3 44.0 1.0
OG1 A:THR138 2.4 50.2 1.0
OG1 A:THR103 2.4 59.2 1.0
C A:THR103 3.1 42.7 1.0
C A:VAL41 3.4 41.5 1.0
CB A:THR103 3.5 47.4 1.0
N A:ALA43 3.6 37.5 1.0
CB A:ALA43 3.7 33.2 1.0
CB A:THR138 3.7 42.3 1.0
N A:VAL105 3.7 42.0 1.0
CB A:VAL105 3.8 40.4 1.0
N A:VAL104 3.8 42.6 1.0
CG2 A:VAL105 3.8 39.9 1.0
CA A:VAL104 3.9 40.6 1.0
C A:THR42 3.9 36.8 1.0
CA A:THR103 3.9 43.4 1.0
C A:VAL104 3.9 38.9 1.0
CA A:THR42 3.9 39.9 1.0
N A:THR42 4.1 40.7 1.0
CA A:ALA43 4.2 36.7 1.0
CG1 A:VAL41 4.4 39.9 1.0
CA A:VAL105 4.4 41.1 1.0
CB A:VAL41 4.5 39.9 1.0
CG2 A:THR138 4.5 43.3 1.0
CA A:VAL41 4.5 38.9 1.0
N A:THR103 4.6 45.8 1.0
O A:THR42 4.6 33.9 1.0
O A:VAL104 4.7 41.6 1.0
CA A:THR138 4.8 37.7 1.0
CG2 A:THR103 4.8 45.9 1.0
O A:ALA43 4.9 37.2 1.0
CG1 A:VAL105 5.0 45.7 1.0

Reference:

D.Borek, J.Raczynska, I.Dubrovska, S.Grimshaw, G.Minasov, L.Shuvalova, K.Kwon, W.F.Anderson, Z.Otwinowski, Center For Structural Genomics Of Infectious Diseases. Aminopeptidase N (Pepn) From Francisella Tularensis Subsp. Tularensis Schu S4 To Be Published.
Page generated: Tue Dec 15 10:49:56 2020

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