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Sodium in PDB 3ug3: Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form

Enzymatic activity of Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form

All present enzymatic activity of Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form:
3.2.1.55;

Protein crystallography data

The structure of Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form, PDB code: 3ug3 was solved by D.-H.Im, K.Miyazaki, T.Wakagi, S.Fushinobu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.14 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 101.515, 160.647, 155.735, 90.00, 91.75, 90.00
R / Rfree (%) 17.5 / 19.7

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form (pdb code 3ug3). 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 Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form, PDB code: 3ug3:

Sodium binding site 1 out of 1 in 3ug3

Go back to Sodium Binding Sites List in 3ug3
Sodium binding site 1 out of 1 in the Crystal Structure of Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form


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 Alpha-L-Arabinofuranosidase From Thermotoga Maritima Ligand Free Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na496

b:40.4
occ:1.00
 O A:HOH2347 2.2 28.6 1.0
O A:HOH2348 2.2 35.1 1.0
O A:HOH1577 2.4 38.8 1.0
O A:PRO203 3.8 19.5 1.0
NZ A:LYS206 3.9 35.4 1.0
O A:ILE205 4.1 18.6 1.0
O A:THR204 4.3 19.2 1.0
O A:HOH784 4.5 48.8 1.0
C A:THR204 4.6 19.6 1.0
OD1 A:ASP230 4.6 21.7 1.0
NZ A:LYS199 4.6 19.2 1.0
CD A:LYS206 4.6 27.5 1.0
NH2 A:ARG273 4.7 30.2 1.0
CA A:THR204 4.8 19.3 1.0
CE A:LYS206 4.8 32.6 1.0
C A:PRO203 4.9 19.6 1.0

Reference:

D.-H.Im, K.I.Kimura, F.Hayasaka, T.Tanaka, M.Noguchi, A.Kobayashi, S.Shoda, K.Miyazaki, T.Wakagi, S.Fushinobu. Crystal Structures of Glycoside Hydrolase Family 51 Alpha-L-Arabinofuranosidase From Thermotoga Maritima Biosci.Biotechnol.Biochem. V. 76 423 2012.
ISSN: ISSN 0916-8451
PubMed: 22313787
DOI: 10.1271/BBB.110902
Page generated: Mon Oct 7 13:28:31 2024

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