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Sodium in PDB 3k1u: Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum

Protein crystallography data

The structure of Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum, PDB code: 3k1u was solved by J.Osipiuk, R.Wu, R.Jedrzejczak, A.Joachimiak, Midwest Center Forstructural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.20 / 1.55
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.450, 59.658, 112.391, 90.00, 90.00, 90.00
R / Rfree (%) 13.6 / 16.1

Other elements in 3k1u:

The structure of Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum (pdb code 3k1u). 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 Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum, PDB code: 3k1u:

Sodium binding site 1 out of 1 in 3k1u

Go back to Sodium Binding Sites List in 3k1u
Sodium binding site 1 out of 1 in the Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na412

b:13.3
occ:1.00
OG1 A:THR99 2.3 6.7 1.0
O A:GLU96 2.4 6.6 1.0
OD1 A:ASN101 2.4 8.1 1.0
O A:PHE100 2.4 5.7 1.0
O A:HOH361 2.5 7.4 1.0
O A:THR99 2.5 5.3 1.0
C A:THR99 3.1 5.7 1.0
C A:PHE100 3.3 5.3 1.0
CB A:THR99 3.4 5.9 1.0
CG A:ASN101 3.5 9.1 1.0
C A:GLU96 3.5 7.0 1.0
CA A:THR99 3.7 4.9 1.0
N A:THR99 3.9 6.7 1.0
N A:PHE100 3.9 5.7 1.0
N A:GLU96 3.9 7.1 1.0
O A:HOH465 3.9 12.5 1.0
OE1 A:GLN152 4.0 6.8 1.0
N A:ASN101 4.0 6.3 1.0
CB A:PHE132 4.1 4.8 1.0
CA A:ASN101 4.1 6.5 1.0
CA A:PHE100 4.1 4.8 1.0
CA A:GLU96 4.1 8.1 1.0
CB A:GLU96 4.2 8.5 1.0
ND2 A:ASN101 4.3 18.0 1.0
CB A:ASN101 4.4 8.1 1.0
O A:HOH430 4.4 15.1 1.0
N A:PHE132 4.6 4.5 1.0
N A:ASP97 4.6 7.8 1.0
CG2 A:THR99 4.7 7.1 1.0
CB A:ASP97 4.8 7.6 1.0
CA A:PHE132 4.8 3.9 1.0
C A:ASP97 4.8 8.3 1.0
CG A:PHE132 4.8 3.6 1.0
CA A:ASP97 4.9 8.1 1.0

Reference:

J.Osipiuk, R.Wu, R.Jedrzejczak, A.Joachimiak. X-Ray Crystal Structure of Beta-Xylosidase, Family 43 Glycosyl Hydrolase From Clostridium Acetobutylicum at 1.55 A Resolution To Be Published.
Page generated: Tue Dec 15 06:15:52 2020

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