Atomistry » Magnesium » PDB 4w5o-4wfm » 4w84
Atomistry »
  Magnesium »
    PDB 4w5o-4wfm »
      4w84 »

Magnesium in PDB 4w84: Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form

Enzymatic activity of Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form

All present enzymatic activity of Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form:
3.2.1.151;

Protein crystallography data

The structure of Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form, PDB code: 4w84 was solved by C.R.Santos, R.L.Cordeiro, D.W.S.Wong, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.61 / 1.79
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 97.241, 97.241, 95.678, 90.00, 90.00, 120.00
R / Rfree (%) 17.8 / 20.2

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form (pdb code 4w84). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form, PDB code: 4w84:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4w84

Go back to Magnesium Binding Sites List in 4w84
Magnesium binding site 1 out of 2 in the Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:33.4
occ:1.00
 O B:HOH775 2.1 33.9 1.0
O A:HOH613 2.1 26.4 1.0
O A:HOH602 2.1 33.8 1.0
O A:HOH655 2.1 35.8 1.0
O A:HOH777 2.1 30.7 1.0
O B:HOH602 2.1 35.9 1.0
OD1 A:ASN278 3.7 33.1 1.0
OD2 B:ASP270 4.0 35.3 1.0
OD1 B:ASP270 4.0 37.2 1.0
O B:HOH691 4.1 25.5 1.0
OD2 A:ASP281 4.2 35.0 1.0
O A:GLY277 4.2 24.1 1.0
OD1 A:ASP281 4.3 27.0 1.0
CG B:ASP270 4.4 35.4 1.0
CA A:ASN278 4.4 25.0 1.0
CG A:ASP281 4.6 29.8 1.0
C A:GLY277 4.7 24.7 1.0
CG A:ASN278 4.7 31.4 1.0
N A:ASN278 4.8 24.8 1.0
O A:HOH760 4.8 37.4 1.0

Magnesium binding site 2 out of 2 in 4w84

Go back to Magnesium Binding Sites List in 4w84
Magnesium binding site 2 out of 2 in the Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of XEG5A, A GH5 Xyloglucan-Specific Endo-Beta-1,4- Glucanase From Ruminal Metagenomic Library, in the Native Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:33.9
occ:1.00
 O A:HOH778 2.1 33.1 1.0
O B:HOH779 2.1 37.5 1.0
O B:HOH601 2.1 31.5 1.0
O A:HOH779 2.1 35.1 1.0
O B:HOH777 2.1 27.7 1.0
O B:HOH778 2.1 30.2 1.0
OD1 B:ASN278 3.8 32.1 1.0
OD2 A:ASP270 4.0 35.4 1.0
OD1 A:ASP270 4.0 35.3 1.0
O A:HOH709 4.1 25.4 1.0
O B:GLY277 4.2 24.9 1.0
OD1 B:ASP281 4.3 27.2 1.0
OD2 B:ASP281 4.3 36.1 1.0
CG A:ASP270 4.4 34.4 1.0
CA B:ASN278 4.5 24.8 1.0
CG B:ASP281 4.7 29.9 1.0
O B:HOH800 4.7 35.1 1.0
C B:GLY277 4.7 25.0 1.0
CG B:ASN278 4.8 31.0 1.0
N B:ASN278 4.8 23.5 1.0

Reference:

C.R.Santos, R.L.Cordeiro, D.W.Wong, M.T.Murakami. Structural Basis For Xyloglucan Specificity and Alpha-D-Xylp(16)-D-Glcp Recognition at the -1 Subsite Within the GH5 Family. Biochemistry 2015.
ISSN: ISSN 0006-2960
PubMed: 25714929
DOI: 10.1021/ACS.BIOCHEM.5B00011
Page generated: Tue Aug 20 13:08:09 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