Atomistry » Chlorine » PDB 5aoa-5b1k » 5b06
Atomistry »
  Chlorine »
    PDB 5aoa-5b1k »
      5b06 »

Chlorine in PDB 5b06: Lysozyme (Denatured By Naod and Refolded)

Enzymatic activity of Lysozyme (Denatured By Naod and Refolded)

All present enzymatic activity of Lysozyme (Denatured By Naod and Refolded):
3.2.1.17;

Protein crystallography data

The structure of Lysozyme (Denatured By Naod and Refolded), PDB code: 5b06 was solved by A.Kita, Y.Morimoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.72 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.800, 78.800, 36.801, 90.00, 90.00, 90.00
R / Rfree (%) 14.9 / 18.7

Other elements in 5b06:

The structure of Lysozyme (Denatured By Naod and Refolded) also contains other interesting chemical elements:

Sodium (Na) 8 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Lysozyme (Denatured By Naod and Refolded) (pdb code 5b06). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Lysozyme (Denatured By Naod and Refolded), PDB code: 5b06:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 5b06

Go back to Chlorine Binding Sites List in 5b06
Chlorine binding site 1 out of 4 in the Lysozyme (Denatured By Naod and Refolded)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Lysozyme (Denatured By Naod and Refolded) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl2013

b:17.6
occ:1.00
OH A:TYR23 3.0 13.6 1.0
NA A:NA2009 3.3 22.2 1.0
CE2 A:TYR23 3.7 12.1 1.0
CZ A:TYR23 3.7 13.9 1.0
C1 A:EDO2002 4.1 33.3 1.0
CA A:GLY104 4.2 14.3 1.0
O A:ARG21 4.6 15.5 1.0
N A:GLY104 4.7 13.4 1.0
CE1 A:TYR23 4.9 12.9 1.0
CD2 A:TYR23 4.9 11.7 1.0

Chlorine binding site 2 out of 4 in 5b06

Go back to Chlorine Binding Sites List in 5b06
Chlorine binding site 2 out of 4 in the Lysozyme (Denatured By Naod and Refolded)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Lysozyme (Denatured By Naod and Refolded) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl2014

b:19.1
occ:1.00
O A:HOH2151 3.1 12.4 1.0
O A:HOH2207 3.1 29.2 1.0
N A:THR69 3.1 16.9 1.0
O A:THR69 3.3 17.3 1.0
O A:HOH2215 3.5 27.2 1.0
N A:ARG68 3.5 14.8 1.0
C A:GLY67 3.5 15.8 1.0
O A:HOH2115 3.5 32.8 1.0
CA A:GLY67 3.6 14.7 1.0
C A:THR69 3.7 18.1 1.0
N A:GLY67 3.7 15.7 1.0
OD1 A:ASN65 3.7 18.5 1.0
OG A:SER72 3.7 19.5 1.0
CA A:THR69 3.8 16.7 1.0
NA A:NA2011 4.0 26.2 1.0
CB A:THR69 4.1 17.4 1.0
C A:ARG68 4.1 17.3 1.0
OD1 A:ASP66 4.2 13.3 1.0
O A:GLY67 4.2 18.9 1.0
CA A:ARG68 4.3 16.4 1.0
N A:PRO70 4.6 19.1 1.0
O A:HOH2101 4.7 10.0 1.0
OG1 A:THR69 4.7 15.9 1.0
C A:ASP66 4.7 14.4 1.0
O A:HOH2164 4.8 22.3 0.5
N A:ASP66 4.9 13.3 1.0
CG A:ASN65 4.9 18.3 1.0
O A:HOH2186 4.9 42.3 1.0
CB A:SER72 4.9 19.7 1.0

Chlorine binding site 3 out of 4 in 5b06

Go back to Chlorine Binding Sites List in 5b06
Chlorine binding site 3 out of 4 in the Lysozyme (Denatured By Naod and Refolded)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Lysozyme (Denatured By Naod and Refolded) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl2015

b:21.6
occ:1.00
O A:HOH2199 2.7 34.9 1.0
OG A:SER24 3.0 18.3 1.0
N A:GLY26 3.2 14.7 1.0
CB A:SER24 3.5 18.2 1.0
CA A:GLY26 3.5 15.2 1.0
CA A:GLN121 3.6 19.0 1.0
CD1 A:ILE124 3.9 26.2 1.0
N A:GLN121 4.0 17.4 1.0
CB A:GLN121 4.0 24.0 1.0
CG1 A:ILE124 4.2 21.3 1.0
O A:VAL120 4.3 16.3 1.0
C A:VAL120 4.3 15.8 1.0
N A:LEU25 4.3 16.5 1.0
CG2 A:VAL120 4.3 16.8 1.0
CG A:GLN121 4.3 29.5 1.0
C A:LEU25 4.4 16.1 1.0
C A:SER24 4.4 17.5 1.0
C A:GLY26 4.5 13.8 1.0
CA A:SER24 4.5 16.0 1.0
N A:ASN27 4.6 11.9 1.0
CA A:LEU25 4.8 15.5 1.0
C A:GLN121 4.8 16.7 1.0
O A:SER24 4.9 14.7 1.0

Chlorine binding site 4 out of 4 in 5b06

Go back to Chlorine Binding Sites List in 5b06
Chlorine binding site 4 out of 4 in the Lysozyme (Denatured By Naod and Refolded)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Lysozyme (Denatured By Naod and Refolded) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl2016

b:27.3
occ:1.00
NZ A:LYS33 3.5 24.1 1.0
CE2 A:PHE38 3.7 14.9 1.0
CZ3 A:TRP123 3.9 15.9 1.0
O A:HOH2168 4.1 40.6 1.0
CE A:LYS33 4.1 20.4 1.0
CD A:ARG5 4.1 21.8 1.0
CD A:LYS33 4.2 16.5 1.0
CB A:ARG5 4.4 19.1 1.0
CZ A:PHE38 4.4 13.6 1.0
O A:HOH2202 4.6 39.4 1.0
CD2 A:PHE38 4.7 15.6 1.0
CG A:ARG5 4.7 18.6 1.0
CE3 A:TRP123 4.7 15.6 1.0
NE A:ARG5 4.7 20.7 1.0
CH2 A:TRP123 4.9 16.5 1.0

Reference:

A.Kita, Y.Morimoto. An Effective Deuterium Exchange Method For Neutron Crystal Structure Analysis with Unfolding-Refolding Processes Mol Biotechnol. V. 58 130 2016.
ISSN: ESSN 1559-0305
PubMed: 26718545
DOI: 10.1007/S12033-015-9908-8
Page generated: Fri Jul 26 05:26:31 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy