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Chlorine in PDB 6lt5: Lysozyme Protected By Alginate Gel

Enzymatic activity of Lysozyme Protected By Alginate Gel

All present enzymatic activity of Lysozyme Protected By Alginate Gel:
3.2.1.17;

Protein crystallography data

The structure of Lysozyme Protected By Alginate Gel, PDB code: 6lt5 was solved by F.Tomoike, S.Morita, T.Nagae, T.Okada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.84 / 1.32
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.097, 79.097, 36.962, 90, 90, 90
R / Rfree (%) 17 / 18

Other elements in 6lt5:

The structure of Lysozyme Protected By Alginate Gel also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Lysozyme Protected By Alginate Gel (pdb code 6lt5). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Lysozyme Protected By Alginate Gel, PDB code: 6lt5:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 6lt5

Go back to Chlorine Binding Sites List in 6lt5
Chlorine binding site 1 out of 5 in the Lysozyme Protected By Alginate Gel


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Lysozyme Protected By Alginate Gel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:12.9
occ:1.00
OH A:TYR23 3.0 10.1 1.0
O A:HOH346 3.3 12.6 1.0
CE2 A:TYR23 3.7 9.2 1.0
CZ A:TYR23 3.7 9.9 1.0
CA A:GLY104 4.1 10.1 1.0
O A:ARG21 4.6 11.1 1.0
N A:GLY104 4.6 10.1 1.0
O A:HOH389 4.7 29.1 1.0
CE1 A:TYR23 4.9 9.4 1.0
CD2 A:TYR23 4.9 9.1 1.0

Chlorine binding site 2 out of 5 in 6lt5

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Chlorine binding site 2 out of 5 in the Lysozyme Protected By Alginate Gel


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Lysozyme Protected By Alginate Gel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:13.5
occ:1.00
O A:HOH356 3.1 10.1 1.0
O A:HOH427 3.2 18.8 1.0
N A:THR69 3.3 10.5 1.0
O A:HOH423 3.3 30.9 1.0
O A:THR69 3.3 11.5 1.0
O A:HOH371 3.4 27.1 1.0
N A:ARG68 3.5 11.1 1.0
C A:GLY67 3.5 12.4 1.0
CA A:GLY67 3.6 10.8 1.0
OG A:SER72 3.6 11.8 1.0
N A:GLY67 3.6 10.0 1.0
C A:THR69 3.7 11.6 1.0
OD1 A:ASN65 3.8 11.7 1.0
CA A:THR69 3.9 10.8 1.0
O A:HOH383 4.0 13.4 1.0
O A:GLY67 4.1 14.9 1.0
C A:ARG68 4.3 12.9 1.0
CB A:THR69 4.3 11.4 1.0
OD1 A:ASP66 4.3 9.6 1.0
CA A:ARG68 4.3 11.9 1.0
N A:PRO70 4.6 10.9 1.0
NA A:NA201 4.7 9.8 0.9
C A:ASP66 4.8 10.4 1.0
O A:HOH385 4.8 22.1 0.5
CB A:SER72 4.9 12.5 1.0
OG1 A:THR69 4.9 10.0 1.0
N A:ASP66 4.9 8.8 1.0
CG A:ASN65 5.0 12.6 1.0

Chlorine binding site 3 out of 5 in 6lt5

Go back to Chlorine Binding Sites List in 6lt5
Chlorine binding site 3 out of 5 in the Lysozyme Protected By Alginate Gel


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Lysozyme Protected By Alginate Gel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:18.8
occ:1.00
O A:HOH398 3.1 18.2 1.0
ND2 A:ASN65 3.2 13.9 1.0
CB A:PRO79 3.7 11.9 1.0
CA A:PRO79 3.7 10.5 1.0
CB A:ASN65 3.9 11.2 1.0
N A:PRO79 3.9 10.8 1.0
CG A:ASN65 4.0 12.6 1.0
CD A:PRO79 4.3 10.8 1.0
O A:ASN65 4.3 9.0 1.0
CG A:PRO79 4.4 13.3 1.0
C A:ILE78 4.5 10.9 1.0
O A:ILE78 4.6 10.1 1.0
ND2 A:ASN74 4.9 13.1 1.0
C A:ASN65 5.0 8.9 1.0
CA A:ASN65 5.0 8.8 1.0

Chlorine binding site 4 out of 5 in 6lt5

Go back to Chlorine Binding Sites List in 6lt5
Chlorine binding site 4 out of 5 in the Lysozyme Protected By Alginate Gel


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Lysozyme Protected By Alginate Gel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:20.2
occ:1.00
O A:HOH428 3.3 27.5 1.0
O A:HOH426 3.4 26.2 1.0
NZ A:LYS33 3.4 17.0 1.0
CE2 A:PHE38 3.7 11.5 1.0
CZ3 A:TRP123 3.9 15.0 1.0
CE A:LYS33 3.9 14.4 1.0
CD A:LYS33 4.1 11.6 1.0
O A:HOH378 4.2 25.4 1.0
CD A:ARG5 4.3 14.6 1.0
CB A:ARG5 4.3 12.2 1.0
CZ A:PHE38 4.3 11.7 1.0
CD2 A:PHE38 4.6 10.2 1.0
CG A:ARG5 4.7 12.8 1.0
CE3 A:TRP123 4.8 12.3 1.0
CH2 A:TRP123 4.8 15.6 1.0
NE A:ARG5 4.9 17.3 1.0
C3 A:GOL208 4.9 24.4 1.0

Chlorine binding site 5 out of 5 in 6lt5

Go back to Chlorine Binding Sites List in 6lt5
Chlorine binding site 5 out of 5 in the Lysozyme Protected By Alginate Gel


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Lysozyme Protected By Alginate Gel within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:18.2
occ:1.00
OG A:SER24 3.0 14.4 1.0
N A:GLY26 3.1 10.0 1.0
CB A:SER24 3.5 12.2 1.0
CA A:GLY26 3.5 10.3 1.0
CA A:GLN121 3.6 16.2 1.0
CB A:GLN121 3.9 21.1 1.0
N A:GLN121 3.9 14.2 1.0
CD1 A:ILE124 4.0 23.3 1.0
N A:LEU25 4.2 11.5 1.0
O A:VAL120 4.3 12.6 1.0
C A:VAL120 4.3 12.1 1.0
CG1 A:ILE124 4.3 19.0 1.0
C A:SER24 4.3 10.2 1.0
C A:LEU25 4.3 10.8 1.0
CG2 A:VAL120 4.4 14.2 1.0
C A:GLY26 4.5 9.4 1.0
CA A:SER24 4.5 11.1 1.0
N A:ASN27 4.6 8.7 1.0
CA A:LEU25 4.7 11.5 1.0
O A:SER24 4.8 11.2 1.0
C A:GLN121 4.8 13.3 1.0
O A:HOH417 5.0 21.3 1.0

Reference:

S.Morita, T.Itabashi, T.Nagae, S.Takeuchi, T.Okada, F.Tomoike. Post-Crystallization Protection of Protein Crystals To Be Published.
Page generated: Sat Jul 12 16:36:21 2025

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