Atomistry » Calcium » PDB 5z4p-5zxg » 5z5d
Atomistry »
  Calcium »
    PDB 5z4p-5zxg »
      5z5d »

Calcium in PDB 5z5d: Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08

Enzymatic activity of Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08

All present enzymatic activity of Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08:
3.2.1.37;

Protein crystallography data

The structure of Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08, PDB code: 5z5d was solved by A.Rohman, N.Van Oosterwijk, N.N.T.Puspaningsih, B.W.Dijkstra, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.13 / 1.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 62.076, 62.076, 275.789, 90.00, 90.00, 90.00
R / Rfree (%) 14.8 / 17.6

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08 (pdb code 5z5d). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08, PDB code: 5z5d:

Calcium binding site 1 out of 1 in 5z5d

Go back to Calcium Binding Sites List in 5z5d
Calcium binding site 1 out of 1 in the Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of A Thermostable Glycoside Hydrolase Family 43 {Beta}-1,4-Xylosidase From Geobacillus Thermoleovorans It-08 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca601

b:15.3
occ:1.00
 OD1 A:ASP503 2.2 14.0 1.0
O A:SER344 2.3 16.1 1.0
O A:HOH960 2.3 20.1 1.0
O A:ASP503 2.4 10.2 1.0
O A:ASP316 2.4 14.0 1.0
O A:HOH712 2.5 30.6 1.0
O A:HOH842 2.6 23.6 1.0
C A:ASP503 3.4 11.3 1.0
CG A:ASP503 3.4 13.4 1.0
C A:SER344 3.5 17.2 1.0
C A:ASP316 3.5 15.1 1.0
CA A:ASP503 3.9 11.5 1.0
CB A:SER344 4.0 23.3 1.0
CA A:ASP316 4.0 16.7 1.0
CB A:ASP316 4.2 19.0 1.0
CA A:SER344 4.2 19.5 1.0
CB A:ASP503 4.3 12.1 1.0
OD2 A:ASP503 4.3 13.8 1.0
OD1 A:ASN318 4.4 31.1 1.0
N A:TRP345 4.5 15.4 1.0
O A:HOH734 4.5 36.9 1.0
N A:TRP504 4.6 10.5 1.0
N A:PHE317 4.6 14.8 1.0
OD1 A:ASP316 4.7 27.0 1.0
CA A:TRP345 4.7 14.8 1.0
CD1 A:TRP345 4.7 15.5 1.0
CB A:TRP504 4.8 10.5 1.0
CB A:PHE317 4.8 14.3 1.0
OG A:SER344 4.8 29.5 1.0
CA A:TRP504 4.9 10.4 1.0
CG A:ASP316 4.9 23.5 1.0
CG A:TRP345 4.9 15.1 1.0
NE1 A:TRP345 5.0 15.6 1.0

Reference:

A.Rohman, N.Van Oosterwijk, N.N.T.Puspaningsih, B.W.Dijkstra. Structural Basis of Product Inhibition By Arabinose and Xylose of the Thermostable GH43 Beta-1,4-Xylosidase From Geobacillus Thermoleovorans It-08. Plos One V. 13 96358 2018.
ISSN: ESSN 1932-6203
PubMed: 29698436
DOI: 10.1371/JOURNAL.PONE.0196358
Page generated: Mon Jul 15 15:42:57 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy