Atomistry » Sodium » PDB 1b7s-1c82 » 1c82
Atomistry »
  Sodium »
    PDB 1b7s-1c82 »
      1c82 »

Sodium in PDB 1c82: Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution

Enzymatic activity of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution

All present enzymatic activity of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution:
4.2.2.1;

Protein crystallography data

The structure of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution, PDB code: 1c82 was solved by K.Ponnuraj, M.J.Jedrzejas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 83.550, 104.190, 99.880, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 25.7

Other elements in 1c82:

The structure of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution also contains other interesting chemical elements:

Arsenic (As) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution (pdb code 1c82). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution, PDB code: 1c82:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 1c82

Go back to Sodium Binding Sites List in 1c82
Sodium binding site 1 out of 2 in the Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na906

b:20.0
occ:1.00
 O2 A:CAC905 2.1 39.7 1.0
AS A:CAC905 3.5 42.6 1.0
N A:SER630 3.5 25.9 1.0
C1 A:CAC907 3.5 41.0 1.0
CB A:ASP629 3.6 26.9 1.0
C2 A:CAC905 3.7 41.0 1.0
CA A:SER630 3.8 26.7 1.0
CB A:SER630 3.8 24.4 1.0
C A:ASP629 3.8 26.4 1.0
O1 A:CAC905 4.1 40.3 1.0
NZ A:LYS584 4.2 42.3 1.0
C2 A:CAC907 4.3 41.0 1.0
O A:ASP629 4.3 27.2 1.0
CA A:ASP629 4.4 26.1 1.0
AS A:CAC907 4.5 42.6 1.0
C1 A:CAC905 4.6 41.0 1.0
OG A:SER630 4.8 25.4 1.0
CG A:ASP629 4.9 27.4 1.0
N A:ASP629 4.9 25.9 1.0
O1 A:CAC907 5.0 40.3 1.0
OD2 A:ASP629 5.0 27.5 1.0

Sodium binding site 2 out of 2 in 1c82

Go back to Sodium Binding Sites List in 1c82
Sodium binding site 2 out of 2 in the Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na908

b:20.0
occ:1.00
 O2 A:CAC907 2.0 39.7 1.0
AS A:CAC907 3.4 42.6 1.0
CB A:ALA628 3.7 27.3 1.0
O1 A:CAC907 3.7 40.3 1.0
CA A:ALA628 4.1 26.1 1.0
C1 A:CAC907 4.3 41.0 1.0
C2 A:CAC907 4.5 41.0 1.0
N A:ALA628 4.9 26.4 1.0

Reference:

K.Ponnuraj, M.J.Jedrzejas. Mechanism of Hyaluronan Binding and Degradation: Structure of Streptococcus Pneumoniae Hyaluronate Lyase in Complex with Hyaluronic Acid Disaccharide at 1.7 A Resolution. J.Mol.Biol. V. 299 885 2000.
ISSN: ISSN 0022-2836
PubMed: 10843845
DOI: 10.1006/JMBI.2000.3817
Page generated: Sun Oct 6 17:59:09 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy