Atomistry » Sodium » PDB 3c7o-3cpw » 3c7o
Atomistry »
  Sodium »
    PDB 3c7o-3cpw »
      3c7o »

Sodium in PDB 3c7o: Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose.

Enzymatic activity of Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose.

All present enzymatic activity of Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose.:
3.2.1.55;

Protein crystallography data

The structure of Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose., PDB code: 3c7o was solved by E.Vandermarliere, T.M.Bourgois, M.D.Winn, S.Van Campenhout, G.Volckaert, S.V.Strelkov, J.A.Delcour, A.Rabijns, C.M.Courtin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.59 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 67.990, 73.080, 105.690, 90.00, 90.00, 90.00
R / Rfree (%) 15.1 / 17.5

Other elements in 3c7o:

The structure of Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose. also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose. (pdb code 3c7o). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose., PDB code: 3c7o:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3c7o

Go back to Sodium Binding Sites List in 3c7o
Sodium binding site 1 out of 2 in the Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose.


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 A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na489

b:14.6
occ:1.00
 O A:SER388 2.3 14.8 1.0
O A:HOH2192 2.3 20.6 1.0
OD2 A:ASP393 2.3 16.3 1.0
OE1 A:GLN390 2.3 19.3 1.0
O A:ARG368 2.4 13.4 1.0
O A:HOH2156 2.7 19.7 1.0
CG A:ASP393 3.2 15.0 1.0
CD A:GLN390 3.3 19.1 1.0
C A:SER388 3.5 14.3 1.0
OD1 A:ASP393 3.6 16.1 1.0
O A:HOH2262 3.6 32.2 1.0
C A:ARG368 3.6 13.1 1.0
OG A:SER388 3.8 16.9 1.0
NE2 A:GLN390 3.9 19.4 1.0
N A:GLN390 4.0 15.7 1.0
CA A:ILE369 4.2 12.6 1.0
CB A:SER388 4.2 14.8 1.0
O A:HOH2316 4.3 40.1 1.0
N A:ILE389 4.3 14.4 1.0
N A:ILE369 4.4 12.5 1.0
CA A:ILE389 4.4 14.7 1.0
CG2 A:ILE369 4.4 11.6 1.0
CA A:SER388 4.4 14.5 1.0
CB A:ASP393 4.5 12.5 1.0
CG A:GLN390 4.5 18.4 1.0
CB A:GLN390 4.6 16.5 1.0
C A:ILE389 4.6 15.7 1.0
CA A:ARG368 4.7 13.4 1.0
N A:ARG368 4.7 14.1 1.0
OG1 A:THR2 4.8 36.9 1.0
CB A:ARG368 4.9 13.4 1.0
CA A:GLN390 4.9 16.4 1.0
CB A:ILE369 4.9 11.8 1.0

Sodium binding site 2 out of 2 in 3c7o

Go back to Sodium Binding Sites List in 3c7o
Sodium binding site 2 out of 2 in the Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase From Bacillus Subtilis in Complex with Cellotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na490

b:32.0
occ:1.00
 O A:HOH2148 2.0 17.1 1.0
O A:HOH2088 2.3 13.7 1.0
O A:HOH2100 2.3 12.9 1.0
O A:HOH2076 2.4 10.7 1.0
NE2 A:HIS290 2.4 11.2 1.0
O A:HOH2304 2.6 12.8 1.0
O A:HOH2252 2.7 19.2 1.0
CD2 A:HIS290 3.3 11.2 1.0
CE1 A:HIS290 3.4 10.5 1.0
O A:HOH2326 3.5 27.6 1.0
O A:PRO103 3.8 10.7 1.0
O A:PRO164 4.0 12.6 1.0
OD1 A:ASP226 4.4 11.2 1.0
O A:SER227 4.4 11.1 1.0
O A:HIS291 4.4 8.8 1.0
O A:PRO25 4.4 10.7 1.0
ND1 A:HIS290 4.4 11.6 1.0
CG A:HIS290 4.4 9.8 1.0
O A:ALA102 4.5 11.6 1.0
O A:ASP24 4.6 8.8 1.0
CB A:ALA102 4.7 10.8 1.0
C A:ALA102 4.7 11.2 1.0
CB A:VAL26 4.8 9.4 1.0
C A:PRO103 4.9 10.8 1.0

Reference:

E.Vandermarliere, T.M.Bourgois, M.D.Winn, S.Van Campenhout, G.Volckaert, J.A.Delcour, S.V.Strelkov, A.Rabijns, C.M.Courtin. Structural Analysis of A Glycoside Hydrolase Family 43 Arabinoxylan Arabinofuranohydrolase in Complex with Xylotetraose Reveals A Different Binding Mechanism Compared with Other Members of the Same Family. Biochem.J. V. 418 39 2009.
ISSN: ISSN 0264-6021
PubMed: 18980579
DOI: 10.1042/BJ20081256
Page generated: Mon Oct 7 06:13:22 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