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Sodium in PDB 3r0x: Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium

Enzymatic activity of Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium

All present enzymatic activity of Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium:
4.3.1.18;

Protein crystallography data

The structure of Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium, PDB code: 3r0x was solved by S.R.Bharath, B.Shveta, H.S.Savithri, M.R.N.Murthy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.17 / 1.93
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 56.460, 188.390, 46.590, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 21

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium (pdb code 3r0x). 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 Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium, PDB code: 3r0x:

Sodium binding site 1 out of 1 in 3r0x

Go back to Sodium Binding Sites List in 3r0x
Sodium binding site 1 out of 1 in the Crystal Structure of Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium


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 Selenomethionine Incorporated Apo D-Serine Deaminase From Salmonella Tyhimurium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na454

b:23.5
occ:1.00
 O A:SER307 2.7 8.9 1.0
OE2 A:GLU303 2.9 7.9 1.0
O A:GLY277 2.9 7.7 1.0
O A:LEU338 3.1 11.7 1.0
O A:CYS276 3.2 8.1 1.0
SG A:CYS309 3.2 2.0 0.3
O A:VAL340 3.4 11.7 1.0
CD A:GLU303 3.7 7.7 1.0
C A:GLY277 3.7 8.1 1.0
CA A:GLY277 3.8 7.9 1.0
CG A:GLU303 3.8 7.7 1.0
C A:SER307 3.9 8.6 1.0
N A:CYS309 4.0 7.4 1.0
C A:CYS276 4.0 7.8 1.0
CB A:SER307 4.0 8.8 1.0
C A:LEU338 4.2 11.6 1.0
CB A:CYS309 4.2 6.9 1.0
N A:GLY277 4.3 7.9 1.0
CB A:GLU303 4.3 8.0 1.0
N A:VAL340 4.4 11.8 1.0
C A:VAL340 4.4 11.7 1.0
CD A:PRO304 4.5 8.4 1.0
CB A:VAL340 4.5 11.6 1.0
CA A:SER307 4.6 8.8 1.0
CA A:CYS309 4.7 6.7 1.0
CA A:VAL340 4.7 11.8 1.0
OE1 A:GLU303 4.8 7.6 1.0
CA A:LEU338 4.8 11.4 1.0
N A:PRO308 4.8 8.5 1.0
N A:MSE310 4.9 7.6 1.0
CB A:LEU338 4.9 11.3 1.0
SG A:CYS276 4.9 8.5 0.9
C A:PRO308 4.9 7.9 1.0
CA A:PRO308 4.9 8.1 1.0
N A:VAL278 5.0 8.2 1.0

Reference:

S.R.Bharath, S.Bisht, H.S.Savithri, M.R.N.Murthy. Crystal Structures of Open and Closed Forms of D-Serine Deaminase From Salmonella Typhimurium - Implications on Substrate Specificity and Catalysis Febs J. 2011.
ISSN: ISSN 1742-464X
PubMed: 21668644
DOI: 10.1111/J.1742-4658.2011.08210.X
Page generated: Mon Oct 7 12:44:02 2024

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