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Sodium in PDB 6q11: Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid

Enzymatic activity of Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid

All present enzymatic activity of Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid:
2.5.1.7;

Protein crystallography data

The structure of Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid, PDB code: 6q11 was solved by B.J.Dopkins, C.J.Call, J.B.Thoden, H.M.Holden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.51 / 1.80
Space group I 2 3
Cell size a, b, c (Å), α, β, γ (°) 137.951, 137.951, 137.951, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 22.6

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid (pdb code 6q11). 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 Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid, PDB code: 6q11:

Sodium binding site 1 out of 1 in 6q11

Go back to Sodium Binding Sites List in 6q11
Sodium binding site 1 out of 1 in the Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid


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 Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na504

b:41.2
occ:0.50
 O A:HOH625 2.1 34.7 1.0
OG A:SER350 2.6 28.2 1.0
O A:ASP347 2.6 24.6 1.0
C A:ASP347 3.6 23.6 1.0
CB A:SER350 3.8 23.6 1.0
OD2 A:ASP347 4.1 33.6 1.0
N A:SER350 4.1 22.2 1.0
N A:ARG349 4.3 23.9 1.0
CB A:ASP347 4.3 27.8 1.0
CA A:GLY348 4.4 23.1 1.0
N A:GLY348 4.4 21.5 1.0
CA A:SER350 4.5 22.2 1.0
CA A:ASP347 4.5 26.9 1.0
C A:GLY348 4.7 24.3 1.0
CG A:ASP347 4.7 33.1 1.0
O A:SER350 4.9 25.3 1.0
C A:ARG349 5.0 25.1 1.0

Reference:

B.J.Dopkins, C.J.Call, J.B.Thoden, H.M.Holden. Crystal Structure of Mura From Clostridium Difficile, Mutation C116S, in the Presence of Uridine-Diphosphate-2(N-Acetylglucosaminyl) Butyric Acid To Be Published.
Page generated: Mon Aug 18 06:39:43 2025

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