Sodium in PDB 9fcf: Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar

Enzymatic activity of Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar

All present enzymatic activity of Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar:
5.3.1.16;

Protein crystallography data

The structure of Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar, PDB code: 9fcf was solved by W.Witek, B.Imiolczyk, M.Ruszkowski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.28 / 2.36
Space group P 4
Cell size a, b, c (Å), α, β, γ (°) 91.301, 91.301, 35.836, 90, 90, 90
R / Rfree (%) 22.4 / 25.7

Other elements in 9fcf:

The structure of Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar (pdb code 9fcf). 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 Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar, PDB code: 9fcf:

Sodium binding site 1 out of 1 in 9fcf

Go back to Sodium Binding Sites List in 9fcf
Sodium binding site 1 out of 1 in the Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Medicago Truncatula 5'-Profar Isomerase (HISN3) D57N Mutant in Complex with Profar within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na402

b:42.2
occ:1.00
 OE2 A:GLU235 2.3 43.7 1.0
OE1 A:GLN65 2.4 39.1 1.0
O A:ILE66 2.7 40.7 1.0
O4P A:GUO401 2.9 39.4 1.0
C6 A:GUO401 3.0 38.1 1.0
CD A:GLU235 3.3 44.8 1.0
OG A:SER286 3.4 38.6 1.0
CD A:GLN65 3.6 38.9 1.0
O11 A:GUO401 3.7 50.1 1.0
O5P A:GUO401 3.8 31.8 1.0
N A:ILE66 3.8 42.7 1.0
P1 A:GUO401 3.8 35.6 1.0
OE1 A:GLU235 3.9 46.6 1.0
C A:ILE66 3.9 43.6 1.0
C9 A:GUO401 3.9 41.7 1.0
CA A:GLY236 4.0 39.4 1.0
OD1 A:ASN57 4.3 57.8 1.0
N A:GLY236 4.4 40.4 1.0
C16 A:GUO401 4.4 44.5 1.0
NE2 A:GLN65 4.5 38.9 1.0
O3P A:GUO401 4.5 36.9 1.0
CA A:ILE66 4.5 44.2 1.0
CB A:GLN65 4.5 39.2 1.0
CG A:GLU235 4.5 45.5 1.0
C20 A:GUO401 4.6 45.2 1.0
CA A:GLN65 4.6 40.3 1.0
C A:GLN65 4.6 43.3 1.0
CB A:SER286 4.6 38.3 1.0
CG A:GLN65 4.6 38.0 1.0
N A:SER286 4.7 36.3 1.0
C12 A:GUO401 4.7 41.7 1.0
N22 A:GUO401 5.0 43.4 1.0
N A:VAL67 5.0 40.9 1.0

Reference:

W.Witek, B.Imiolczyk, M.Ruszkowski. Structural, Kinetic, and Evolutionary Peculiarities of HISN3, A Plant 5'-Profar Isomerase. Plant Physiol Biochem. V. 215 09065 2024.
ISSN: ESSN 1873-2690
PubMed: 39186852
DOI: 10.1016/J.PLAPHY.2024.109065
Page generated: Wed Oct 9 14:30:40 2024

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