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Sodium in PDB 1oaf: Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate

Enzymatic activity of Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate

All present enzymatic activity of Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate:
1.11.1.11;

Protein crystallography data

The structure of Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate, PDB code: 1oaf was solved by K.H.Sharp, E.L.Raven, P.C.E.Moody, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.74 / 1.4
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 81.328, 81.328, 74.884, 90.00, 90.00, 90.00
R / Rfree (%) 16.081 / 19.625

Other elements in 1oaf:

The structure of Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate also contains other interesting chemical elements:

Iron (Fe) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate (pdb code 1oaf). 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 Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate, PDB code: 1oaf:

Sodium binding site 1 out of 1 in 1oaf

Go back to Sodium Binding Sites List in 1oaf
Sodium binding site 1 out of 1 in the Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Ascobate Peroxidase From Soybean Cytosol in Complex with Ascorbate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1252

b:14.4
occ:1.00
O A:THR164 2.2 12.9 1.0
O A:HOH2420 2.3 25.0 1.0
O A:ASN182 2.3 13.2 1.0
O A:ILE185 2.4 11.9 1.0
OG1 A:THR180 2.7 14.5 1.0
C A:ASN182 3.3 13.5 1.0
C A:THR164 3.4 11.8 1.0
C A:ILE185 3.5 11.2 1.0
CB A:THR180 3.5 13.4 1.0
OG1 A:THR164 3.8 17.0 1.0
CG2 A:THR180 3.9 13.3 1.0
N A:ILE185 4.1 11.6 1.0
CA A:PRO183 4.1 13.0 1.0
N A:PRO183 4.1 13.4 1.0
CA A:ILE185 4.2 11.9 1.0
CA A:ASN182 4.2 15.1 1.0
CA A:THR164 4.2 11.9 1.0
CB A:ASN182 4.3 16.0 1.0
OD1 A:ASP187 4.3 18.4 1.0
CB A:ILE185 4.3 11.8 1.0
N A:ILE165 4.4 11.0 1.0
N A:ASN182 4.5 15.0 1.0
CB A:THR164 4.5 12.8 1.0
C A:PRO183 4.5 12.8 1.0
CA A:ILE165 4.5 10.8 1.0
N A:PHE186 4.6 10.8 1.0
CG2 A:ILE165 4.6 11.6 1.0
O A:HOH2391 4.7 13.0 1.0
O A:HOH2419 4.7 41.6 1.0
CG2 A:THR164 4.7 12.1 1.0
O A:HOH2412 4.7 32.1 1.0
N A:ASP187 4.8 12.8 1.0
N A:LEU184 4.9 12.1 1.0
CA A:PHE186 4.9 10.6 1.0
O A:PRO183 4.9 12.6 1.0
CA A:THR180 4.9 13.2 1.0
CG A:ASP187 5.0 17.7 1.0
CG2 A:ILE185 5.0 14.0 1.0

Reference:

K.H.Sharp, M.Mewies, P.C.E.Moody, E.L.Raven. Crystal Structure of the Ascorbate Peroxidase-Ascorbate Complex Nat.Struct.Biol. V. 10 303 2003.
ISSN: ISSN 1072-8368
PubMed: 12640445
DOI: 10.1038/NSB913
Page generated: Tue Dec 15 05:32:11 2020

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