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Chlorine in PDB 6b7w: Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition

Enzymatic activity of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition

All present enzymatic activity of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition, PDB code: 6b7w was solved by M.A.B.Morais, A.F.Z.Nascimento, C.Y.Tominaga, M.Cristianini, A.A.L.Tribst, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.36 / 1.48
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.540, 78.540, 36.946, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 18.7

Other elements in 6b7w:

The structure of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition (pdb code 6b7w). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition, PDB code: 6b7w:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 6b7w

Go back to Chlorine Binding Sites List in 6b7w
Chlorine binding site 1 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:16.4
occ:1.00
 OH A:TYR41 3.0 12.6 1.0
O A:HOH355 3.4 16.0 1.0
O A:HOH400 3.5 39.1 1.0
CZ A:TYR41 3.7 10.7 1.0
CE2 A:TYR41 3.7 10.4 1.0
CA A:GLY122 4.1 11.3 1.0
O A:ARG39 4.6 13.9 1.0
N A:GLY122 4.7 12.3 1.0
CE1 A:TYR41 4.9 9.5 1.0
CD2 A:TYR41 4.9 8.7 1.0

Chlorine binding site 2 out of 6 in 6b7w

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Chlorine binding site 2 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:33.0
occ:1.00
 N A:ILE106 3.2 12.9 1.0
O A:HOH326 3.4 38.4 1.0
O A:HOH317 3.5 28.7 1.0
CG1 A:ILE106 3.6 13.5 1.0
CA A:ASP105 3.8 14.1 1.0
CE1 A:HIS33 3.8 23.0 1.0
O A:SER104 3.9 17.4 1.0
C A:ASP105 4.0 13.2 1.0
OD1 A:ASP105 4.1 19.1 1.0
CG2 A:ILE106 4.2 13.4 1.0
CB A:ILE106 4.2 11.2 1.0
CA A:ILE106 4.3 12.0 1.0
CZ A:PHE21 4.3 16.8 1.0
CB A:ALA29 4.4 18.1 1.0
NH2 A:ARG32 4.5 40.1 1.0
CD1 A:ILE106 4.6 13.4 1.0
CG A:ASP105 4.6 26.2 1.0
ND1 A:HIS33 4.6 22.2 1.0
NE2 A:HIS33 4.7 24.9 1.0
CB A:ASP105 4.7 18.7 1.0
N A:ASP105 4.8 14.7 1.0
C A:SER104 4.8 16.1 1.0
CE2 A:PHE21 4.9 14.1 1.0
N A:THR107 5.0 12.4 1.0
C A:ILE106 5.0 12.8 1.0

Chlorine binding site 3 out of 6 in 6b7w

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Chlorine binding site 3 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:20.6
occ:1.00
 O A:HOH412 3.0 26.4 1.0
N A:THR87 3.1 11.5 1.0
O A:HOH360 3.2 11.9 1.0
O A:THR87 3.2 14.8 1.0
N A:ARG86 3.4 12.6 1.0
C A:GLY85 3.5 15.8 1.0
O A:HOH348 3.5 36.9 1.0
OG A:SER90 3.6 18.1 1.0
C A:THR87 3.6 10.5 1.0
CA A:GLY85 3.6 13.5 1.0
N A:GLY85 3.7 12.1 1.0
OD1 A:ASN83 3.8 14.9 1.0
CA A:THR87 3.8 10.9 1.0
O A:HOH304 3.9 18.3 1.0
C A:ARG86 4.1 14.5 1.0
CB A:THR87 4.1 13.3 1.0
O A:GLY85 4.1 17.3 1.0
CA A:ARG86 4.2 11.1 1.0
OD1 A:ASP84 4.2 10.5 1.0
N A:PRO88 4.6 14.3 1.0
NA A:NA207 4.7 16.8 1.0
OG1 A:THR87 4.7 13.2 1.0
C A:ASP84 4.7 10.9 1.0
OXT A:ACT211 4.8 37.6 1.0
N A:ASP84 4.8 9.6 1.0
CB A:SER90 4.9 18.5 1.0
O A:HOH372 4.9 19.0 0.5
CG A:ASN83 4.9 15.4 1.0

Chlorine binding site 4 out of 6 in 6b7w

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Chlorine binding site 4 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:29.9
occ:1.00
 O A:HOH382 3.2 34.0 1.0
O A:HOH408 3.4 33.7 1.0
NZ A:LYS51 3.5 20.6 1.0
O A:HOH374 3.5 39.9 1.0
CE2 A:PHE56 3.7 12.3 1.0
CZ3 A:TRP141 3.9 15.2 1.0
CE A:LYS51 3.9 19.2 1.0
O A:HOH358 4.0 32.3 1.0
CD A:LYS51 4.1 13.0 1.0
O1 A:GOL209 4.3 35.4 1.0
CZ A:PHE56 4.3 12.2 1.0
CD A:ARG23 4.3 18.6 1.0
CB A:ARG23 4.4 14.6 1.0
CD2 A:PHE56 4.6 12.2 1.0
CH2 A:TRP141 4.7 19.5 1.0
CG A:ARG23 4.7 14.7 1.0
CE3 A:TRP141 4.8 13.7 1.0
NE A:ARG23 5.0 22.3 1.0

Chlorine binding site 5 out of 6 in 6b7w

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Chlorine binding site 5 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl205

b:26.8
occ:1.00
 O A:HOH392 3.1 21.2 1.0
ND2 A:ASN83 3.2 19.3 1.0
CB A:PRO97 3.6 10.8 1.0
CA A:PRO97 3.7 12.3 1.0
CB A:ASN83 3.9 10.8 1.0
N A:PRO97 3.9 12.5 1.0
CG A:ASN83 4.0 15.4 1.0
CD A:PRO97 4.3 14.4 1.0
O A:ASN83 4.3 9.8 1.0
CG A:PRO97 4.4 16.9 1.0
C A:ILE96 4.5 12.4 1.0
O A:ILE96 4.7 12.9 1.0
ND2 A:ASN92 4.9 15.1 1.0
C A:ASN83 4.9 9.4 1.0
CA A:ASN83 5.0 11.6 1.0

Chlorine binding site 6 out of 6 in 6b7w

Go back to Chlorine Binding Sites List in 6b7w
Chlorine binding site 6 out of 6 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of Hen Egg-White Lysozyme Pre-Treated with High Pressure (600 Mpa) Under Isobaric Condition within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl206

b:21.2
occ:1.00
 OG A:SER42 3.0 16.8 1.0
N A:GLY44 3.1 11.4 1.0
CA A:GLY44 3.5 11.4 1.0
CB A:SER42 3.5 13.9 1.0
CA A:GLN139 3.6 18.9 1.0
N A:GLN139 4.0 15.1 1.0
CB A:GLN139 4.1 23.4 1.0
N A:LEU43 4.2 12.2 1.0
CG A:GLN139 4.2 33.4 1.0
CD1 A:ILE142 4.2 31.1 1.0
C A:LEU43 4.3 12.7 1.0
O A:VAL138 4.3 12.6 1.0
C A:SER42 4.3 13.4 1.0
C A:VAL138 4.3 14.7 1.0
CG2 A:VAL138 4.3 14.5 1.0
CG1 A:ILE142 4.4 22.0 1.0
C A:GLY44 4.5 9.8 1.0
CA A:SER42 4.5 11.8 1.0
N A:ASN45 4.6 10.3 1.0
CA A:LEU43 4.7 11.3 1.0
O A:SER42 4.8 13.9 1.0
C A:GLN139 4.8 13.7 1.0
O A:HOH402 4.9 29.2 1.0
CB A:LEU43 5.0 13.9 1.0

Reference:

M.A.B.Morais, A.F.Z.Nascimento, C.Y.Tominaga, M.Cristianini, A.A.L.Tribst, M.T.Murakami. How High Pressure Pre-Treatments Affect the Function and Structure of Hen Egg-White Lysozyme Innov Food Sci Emerg Technol V. 47 195 2018.
DOI: 10.1016/J.IFSET.2018.02.008
Page generated: Fri Jul 26 22:35:17 2024

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