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Chlorine in PDB 1lz8: Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines

Enzymatic activity of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines

All present enzymatic activity of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines:
3.2.1.17;

Protein crystallography data

The structure of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines, PDB code: 1lz8 was solved by Z.Dauter, M.Dauter, E.De La Fortelle, G.Bricogne, G.M.Sheldrick, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.53
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.810, 78.810, 36.800, 90.00, 90.00, 90.00
R / Rfree (%) 22 / 31

Other elements in 1lz8:

The structure of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines (pdb code 1lz8). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines, PDB code: 1lz8:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Chlorine binding site 1 out of 8 in 1lz8

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Chlorine binding site 1 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:15.2
occ:1.00
OH A:TYR23 3.1 11.6 1.0
O A:HOH214 3.3 14.0 1.0
CE2 A:TYR23 3.7 9.4 1.0
CZ A:TYR23 3.7 11.7 1.0
O A:HOH356 3.8 37.6 1.0
CA A:GLY104 4.1 11.6 1.0
O A:ARG21 4.6 16.7 1.0
N A:GLY104 4.7 12.2 1.0
CD2 A:TYR23 4.9 9.9 1.0
CE1 A:TYR23 4.9 12.0 1.0

Chlorine binding site 2 out of 8 in 1lz8

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Chlorine binding site 2 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:18.9
occ:1.00
O A:HOH334 2.9 34.2 1.0
OG A:SER24 3.2 16.9 1.0
N A:GLY26 3.2 12.2 1.0
CA A:GLY26 3.5 11.6 1.0
CA A:GLN121 3.6 17.2 1.0
CD1 A:ILE124 3.6 33.7 1.0
CB A:SER24 3.6 11.4 1.0
CB A:GLN121 3.9 23.3 1.0
N A:GLN121 4.0 15.2 1.0
CG A:GLN121 4.0 31.9 1.0
CG1 A:ILE124 4.1 20.9 1.0
O A:VAL120 4.2 15.0 1.0
C A:LEU25 4.3 13.2 1.0
N A:LEU25 4.3 16.3 1.0
C A:VAL120 4.3 14.5 1.0
CG2 A:VAL120 4.4 18.6 1.0
C A:SER24 4.4 13.8 1.0
C A:GLY26 4.5 11.5 1.0
N A:ASN27 4.6 11.2 1.0
CA A:SER24 4.7 11.4 1.0
CA A:LEU25 4.8 14.0 1.0
O A:SER24 4.8 14.9 1.0
C A:GLN121 4.8 15.4 1.0
O A:HOH285 4.9 27.1 1.0
O A:HOH328 4.9 33.4 1.0
O A:HOH228 4.9 17.8 1.0

Chlorine binding site 3 out of 8 in 1lz8

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Chlorine binding site 3 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:19.4
occ:1.00
N A:THR69 3.1 15.2 1.0
O A:HOH216 3.2 14.2 1.0
O A:HOH306 3.2 30.2 1.0
O A:THR69 3.3 16.1 1.0
N A:ARG68 3.4 11.3 1.0
C A:GLY67 3.5 14.5 1.0
C A:THR69 3.6 13.9 1.0
N A:GLY67 3.6 15.4 1.0
O A:HOH314 3.6 32.0 1.0
CA A:GLY67 3.6 15.5 1.0
OD1 A:ASN65 3.7 17.0 1.0
OG A:SER72 3.7 18.6 1.0
CA A:THR69 3.8 14.2 1.0
O A:HOH221 4.0 16.4 1.0
C A:ARG68 4.1 15.5 1.0
CB A:THR69 4.1 14.2 1.0
O A:GLY67 4.1 16.4 1.0
OD1 A:ASP66 4.1 11.6 1.0
CA A:ARG68 4.2 12.3 1.0
N A:PRO70 4.5 16.7 1.0
C A:ASP66 4.7 13.5 1.0
NA A:NA209 4.7 17.4 1.0
OG1 A:THR69 4.7 13.9 1.0
CG A:ASN65 4.8 10.6 1.0
N A:ASP66 4.9 9.8 1.0
CB A:SER72 4.9 18.8 1.0

Chlorine binding site 4 out of 8 in 1lz8

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Chlorine binding site 4 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:25.1
occ:1.00
O A:HOH361 3.0 37.9 1.0
N A:ILE88 3.3 15.0 1.0
O A:HOH289 3.3 28.2 1.0
CG1 A:ILE88 3.6 14.1 1.0
CE1 A:HIS15 3.7 24.4 1.0
CA A:ASP87 3.8 20.2 1.0
O A:HOH291 3.9 28.4 1.0
O A:SER86 4.0 20.2 1.0
C A:ASP87 4.0 15.2 1.0
CB A:ALA11 4.1 16.2 1.0
OD1 A:ASP87 4.1 19.2 1.0
CG A:ASP87 4.2 35.7 1.0
CG2 A:ILE88 4.2 20.7 1.0
CB A:ILE88 4.3 14.5 1.0
CA A:ILE88 4.3 12.5 1.0
CZ A:PHE3 4.3 15.5 1.0
NE2 A:HIS15 4.3 24.8 1.0
OD2 A:ASP87 4.5 39.5 1.0
CB A:ASP87 4.6 23.2 1.0
ND1 A:HIS15 4.6 19.2 1.0
CD1 A:ILE88 4.6 15.8 1.0
N A:ASP87 4.8 13.4 1.0
O A:HOH326 4.8 33.2 1.0
C A:SER86 4.9 14.7 1.0
CE2 A:PHE3 4.9 16.3 1.0
C A:ILE88 4.9 14.7 1.0
N A:THR89 5.0 12.8 1.0

Chlorine binding site 5 out of 8 in 1lz8

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Chlorine binding site 5 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:26.1
occ:1.00
O A:HOH395 3.2 42.6 1.0
NZ A:LYS33 3.6 24.0 1.0
CE2 A:PHE38 3.7 16.6 1.0
CZ3 A:TRP123 3.8 14.4 1.0
CD A:ARG5 4.0 17.1 1.0
CE A:LYS33 4.1 21.8 1.0
CD A:LYS33 4.2 12.7 1.0
CB A:ARG5 4.3 20.6 1.0
CZ A:PHE38 4.3 13.8 1.0
CG A:ARG5 4.5 18.9 1.0
CE3 A:TRP123 4.6 12.5 1.0
O A:HOH300 4.6 29.2 1.0
CD2 A:PHE38 4.7 15.6 1.0
NE A:ARG5 4.8 20.9 1.0
CH2 A:TRP123 4.8 16.6 1.0
O A:HOH370 4.9 38.5 1.0

Chlorine binding site 6 out of 8 in 1lz8

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Chlorine binding site 6 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:27.5
occ:1.00
O A:HOH283 3.1 26.7 1.0
ND2 A:ASN65 3.3 16.4 1.0
CA A:PRO79 3.7 13.8 1.0
CB A:PRO79 3.7 13.4 1.0
CB A:ASN65 3.8 12.1 1.0
N A:PRO79 3.9 14.4 1.0
CG A:ASN65 4.1 10.6 1.0
O A:ASN65 4.3 10.3 1.0
CD A:PRO79 4.3 16.7 1.0
CG A:PRO79 4.3 18.9 1.0
C A:ILE78 4.5 13.6 1.0
O A:ILE78 4.7 13.8 1.0
ND2 A:ASN74 4.9 18.0 1.0
C A:ASN65 4.9 10.1 1.0
CA A:ASN65 4.9 14.3 1.0

Chlorine binding site 7 out of 8 in 1lz8

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Chlorine binding site 7 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl207

b:29.3
occ:1.00
O A:HOH371 3.0 38.8 1.0
O A:HOH329 3.1 33.7 1.0
N A:ASN74 3.2 14.9 1.0
NE A:ARG73 3.3 20.8 1.0
O A:HOH389 3.3 41.7 1.0
C A:ASN74 3.6 17.1 1.0
O A:ASN74 3.8 14.7 1.0
CB A:ARG73 3.8 15.6 1.0
CA A:ASN74 3.9 15.2 1.0
CD A:ARG73 3.9 18.6 1.0
C A:ARG73 4.0 16.8 1.0
CA A:ARG73 4.1 14.7 1.0
CD2 A:LEU75 4.1 22.9 1.0
CB A:ASN74 4.2 12.7 1.0
O A:HOH402 4.2 43.7 1.0
N A:LEU75 4.2 16.3 1.0
CZ A:ARG73 4.3 15.4 1.0
NH2 A:ARG73 4.4 23.2 1.0
CG A:ARG73 4.4 20.0 1.0
CA A:LEU75 4.6 17.4 1.0
CG A:LEU75 4.9 19.3 1.0

Chlorine binding site 8 out of 8 in 1lz8

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Chlorine binding site 8 out of 8 in the Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Lysozyme Phased on Anomalous Signal of Sulfurs and Chlorines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl208

b:33.1
occ:1.00
O A:HOH262 2.7 23.8 1.0
NH1 A:ARG68 2.9 21.2 1.0
CD A:ARG68 3.6 18.4 1.0
CZ A:ARG68 4.0 18.5 1.0
NE A:ARG68 4.2 19.8 1.0
NH1 A:ARG45 4.8 31.1 1.0

Reference:

Z.Dauter, M.Dauter, E.De La Fortelle, G.Bricogne, G.M.Sheldrick. Can Anomalous Signal of Sulfur Become A Tool For Solving Protein Crystal Structures? J.Mol.Biol. V. 289 83 1999.
ISSN: ISSN 0022-2836
PubMed: 10339407
DOI: 10.1006/JMBI.1999.2743
Page generated: Sat Dec 12 08:42:16 2020

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