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Chlorine in PDB 4xjd: X-Ray Structure of LYSOZYME2

Enzymatic activity of X-Ray Structure of LYSOZYME2

All present enzymatic activity of X-Ray Structure of LYSOZYME2:
3.2.1.17;

Protein crystallography data

The structure of X-Ray Structure of LYSOZYME2, PDB code: 4xjd was solved by C.Y.Huang, V.Olieric, K.Diederichs, M.Wang, M.Caffrey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.66 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.510, 77.510, 36.750, 90.00, 90.00, 90.00
R / Rfree (%) 21.6 / 26.7

Other elements in 4xjd:

The structure of X-Ray Structure of LYSOZYME2 also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the X-Ray Structure of LYSOZYME2 (pdb code 4xjd). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the X-Ray Structure of LYSOZYME2, PDB code: 4xjd:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in 4xjd

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Chlorine binding site 1 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:26.9
occ:0.79
 OH A:TYR23 3.0 19.8 1.0
CE2 A:TYR23 3.6 21.7 1.0
CZ A:TYR23 3.7 18.3 1.0
O A:HOH306 3.8 26.0 1.0
CA A:GLY104 4.0 20.8 1.0
O A:ARG21 4.4 27.9 1.0
O A:HOH310 4.5 33.0 1.0
N A:GLY104 4.6 22.8 1.0
CD2 A:TYR23 4.8 21.6 1.0
CD A:ARG21 4.8 40.5 1.0
NH1 A:ARG21 4.8 45.1 1.0
CE1 A:TYR23 4.9 18.9 1.0

Chlorine binding site 2 out of 7 in 4xjd

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Chlorine binding site 2 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:31.3
occ:0.66
 OG A:SER24 2.6 31.2 1.0
N A:GLY26 2.9 24.3 1.0
CB A:SER24 3.3 28.3 1.0
CA A:GLN121 3.4 31.2 1.0
CA A:GLY26 3.4 23.9 1.0
CB A:GLN121 3.6 38.7 1.0
N A:LEU25 3.8 25.6 1.0
CD1 A:ILE124 3.8 36.7 1.0
C A:SER24 3.9 26.0 1.0
N A:GLN121 4.0 34.2 1.0
C A:LEU25 4.1 27.3 1.0
CA A:SER24 4.2 25.5 1.0
CG1 A:ILE124 4.2 34.8 1.0
O A:SER24 4.3 26.2 1.0
O A:VAL120 4.3 30.4 1.0
CA A:LEU25 4.3 25.5 1.0
C A:VAL120 4.4 30.5 1.0
CG2 A:VAL120 4.5 24.5 1.0
C A:GLY26 4.6 21.8 1.0
CB A:LEU25 4.6 22.0 1.0
O A:HOH332 4.6 27.6 1.0
C A:GLN121 4.6 32.9 1.0
N A:ASN27 4.7 21.7 1.0
O A:GLN121 4.8 33.7 1.0

Chlorine binding site 3 out of 7 in 4xjd

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Chlorine binding site 3 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:41.7
occ:0.57
 O A:HOH340 2.2 35.5 1.0
OD1 A:ASN65 3.0 38.8 1.0
N A:THR69 3.2 36.5 1.0
N A:ARG68 3.3 26.4 1.0
N A:GLY67 3.4 30.2 1.0
O A:THR69 3.4 39.2 1.0
C A:GLY67 3.5 32.3 1.0
CA A:GLY67 3.6 29.1 1.0
OD1 A:ASP66 3.8 28.8 1.0
OG A:SER72 3.9 42.9 1.0
C A:THR69 3.9 41.0 1.0
CA A:THR69 3.9 34.2 1.0
O A:HOH331 4.0 37.8 1.0
CG A:ASN65 4.0 32.4 1.0
C A:ARG68 4.1 35.0 1.0
CA A:ARG68 4.1 30.9 1.0
CB A:THR69 4.2 34.5 1.0
N A:ASP66 4.2 28.5 1.0
O A:GLY67 4.3 30.9 1.0
C A:ASP66 4.4 29.2 1.0
OG1 A:THR69 4.5 30.7 1.0
NA A:NA208 4.7 34.2 0.9
ND2 A:ASN65 4.8 34.9 1.0
CA A:ASP66 4.9 27.5 1.0
CA A:ASN65 4.9 26.0 1.0
CB A:ASN65 5.0 29.9 1.0
CG A:ASP66 5.0 28.7 1.0
C A:ASN65 5.0 26.5 1.0

Chlorine binding site 4 out of 7 in 4xjd

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Chlorine binding site 4 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:33.6
occ:0.76
 OD1 A:ASP87 3.0 40.4 1.0
N A:ILE88 3.3 27.6 1.0
NE2 A:HIS15 3.4 32.1 1.0
NH2 A:ARG14 3.4 39.9 1.0
CG1 A:ILE88 3.6 27.9 1.0
NH1 A:ARG14 3.8 37.0 1.0
CA A:ASP87 4.0 30.8 1.0
CZ A:ARG14 4.0 36.6 1.0
CG A:ASP87 4.0 33.9 1.0
C A:ASP87 4.1 31.8 1.0
CD2 A:HIS15 4.2 26.9 1.0
CA A:ILE88 4.2 26.1 1.0
CB A:ILE88 4.4 26.0 1.0
CE1 A:HIS15 4.4 31.9 1.0
CB A:ASP87 4.4 31.8 1.0
CB A:ALA11 4.4 29.9 1.0
N A:THR89 4.5 23.5 1.0
CD1 A:ILE88 4.6 29.0 1.0
OG1 A:THR89 4.6 28.7 1.0
C A:ILE88 4.7 27.3 1.0
CG2 A:ILE88 4.7 26.4 1.0

Chlorine binding site 5 out of 7 in 4xjd

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Chlorine binding site 5 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:55.4
occ:0.69
 NZ A:LYS33 3.5 39.4 1.0
O A:HOH305 4.1 35.3 0.9
CE A:LYS33 4.1 33.0 1.0
CE2 A:PHE38 4.3 30.2 1.0
CD A:LYS33 4.5 27.9 1.0
CD A:ARG5 4.6 35.5 1.0
CZ3 A:TRP123 4.8 28.6 1.0
CB A:ARG5 4.8 31.1 1.0

Chlorine binding site 6 out of 7 in 4xjd

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Chlorine binding site 6 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:44.9
occ:0.67
 N A:ASN74 3.1 33.7 1.0
NE A:ARG73 3.2 44.6 1.0
CB A:ARG73 3.6 41.2 1.0
NH2 A:ARG73 3.7 37.8 1.0
C A:ASN74 3.7 35.3 1.0
CD2 A:LEU75 3.8 40.0 1.0
CZ A:ARG73 3.8 40.7 1.0
O A:ASN74 3.9 36.8 1.0
CA A:ARG73 3.9 39.3 1.0
CA A:ASN74 3.9 31.7 1.0
C A:ARG73 4.0 37.4 1.0
CD A:ARG73 4.1 43.2 1.0
N A:LEU75 4.1 37.7 1.0
CB A:ASN74 4.4 31.4 1.0
CG A:ARG73 4.4 43.8 1.0
CG A:LEU75 4.6 36.9 1.0
CA A:LEU75 4.6 36.6 1.0

Chlorine binding site 7 out of 7 in 4xjd

Go back to Chlorine Binding Sites List in 4xjd
Chlorine binding site 7 out of 7 in the X-Ray Structure of LYSOZYME2


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of X-Ray Structure of LYSOZYME2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl207

b:31.0
occ:0.80
 NH1 A:ARG68 3.3 28.8 1.0
CD A:ARG68 3.8 30.9 1.0
CZ A:ARG68 4.2 31.3 1.0
NE A:ARG68 4.4 26.7 1.0
NH2 A:ARG45 5.0 38.2 1.0

Reference:

C.Y.Huang, V.Olieric, P.Ma, E.Panepucci, K.Diederichs, M.Wang, M.Caffrey. In Meso in Situ Serial X-Ray Crystallography of Soluble and Membrane Proteins. Acta Crystallogr.,Sect.D V. 71 1238 2015.
ISSN: ESSN 1399-0047
PubMed: 26057665
DOI: 10.1107/S1399004715005210
Page generated: Fri Jul 11 22:56:31 2025

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