Chlorine in PDB 6yjx: Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide

Enzymatic activity of Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide

All present enzymatic activity of Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide, PDB code: 6yjx was solved by A.Schiefner, A.Skerra, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.11 / 1.20
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.468, 79.468, 37.848, 90.00, 90.00, 90.00
R / Rfree (%) 14.6 / 17.5

Other elements in 6yjx:

The structure of Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide 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 Crystallized with Pas Polypeptide (pdb code 6yjx). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide, PDB code: 6yjx:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 6yjx

Go back to Chlorine Binding Sites List in 6yjx
Chlorine binding site 1 out of 4 in the Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide


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 Crystallized with Pas Polypeptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:16.7
occ:1.00
 OH A:TYR23 3.1 12.6 1.0
O A:HOH360 3.2 16.7 1.0
CZ A:TYR23 3.7 10.5 1.0
CE2 A:TYR23 3.8 10.7 1.0
CA A:GLY104 4.2 12.5 1.0
O A:ARG21 4.6 14.9 0.5
O A:ARG21 4.6 14.5 0.5
N A:GLY104 4.8 12.8 1.0
CE1 A:TYR23 4.9 10.3 1.0

Chlorine binding site 2 out of 4 in 6yjx

Go back to Chlorine Binding Sites List in 6yjx
Chlorine binding site 2 out of 4 in the Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide


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 Crystallized with Pas Polypeptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:23.9
occ:1.00
 O A:HOH385 3.1 14.8 1.0
N A:THR69 3.1 12.8 1.0
O A:THR69 3.3 16.8 1.0
O A:HOH324 3.3 41.0 1.0
N A:ARG68 3.5 13.7 1.0
C A:GLY67 3.5 15.1 1.0
C A:THR69 3.6 13.3 1.0
CA A:GLY67 3.7 14.8 1.0
N A:GLY67 3.7 12.8 1.0
OG A:SER72 3.7 22.2 1.0
OD1 A:ASN65 3.7 17.3 1.0
CA A:THR69 3.8 13.2 1.0
O A:HOH413 4.0 25.0 1.0
CB A:THR69 4.1 13.2 1.0
C A:ARG68 4.2 15.9 1.0
O A:GLY67 4.2 17.6 1.0
OD1 A:ASP66 4.2 11.3 1.0
CA A:ARG68 4.3 14.7 1.0
N A:PRO70 4.6 16.9 1.0
NA A:NA205 4.7 18.5 1.0
OG1 A:THR69 4.8 13.0 1.0
C A:ASP66 4.8 11.5 1.0
N A:ASP66 4.9 11.0 1.0
CG A:ASN65 4.9 15.8 1.0
CB A:SER72 5.0 22.3 1.0

Chlorine binding site 3 out of 4 in 6yjx

Go back to Chlorine Binding Sites List in 6yjx
Chlorine binding site 3 out of 4 in the Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide


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 Crystallized with Pas Polypeptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:23.2
occ:1.00
 CG A:GLN121 2.9 40.4 1.0
OG A:SER24 3.1 16.1 1.0
N A:GLY26 3.1 11.2 1.0
CA A:GLY26 3.5 11.6 1.0
CB A:SER24 3.5 14.1 1.0
CA A:GLN121 3.6 17.0 1.0
CB A:GLN121 3.8 24.1 1.0
CD A:GLN121 4.0 57.2 1.0
NE2 A:GLN121 4.0 77.3 1.0
N A:GLN121 4.0 15.9 1.0
CD1 A:ILE124 4.0 22.4 1.0
N A:LEU25 4.1 11.6 1.0
C A:LEU25 4.3 11.2 1.0
C A:SER24 4.3 12.1 1.0
CG1 A:ILE124 4.3 18.5 1.0
C A:VAL120 4.4 14.4 1.0
O A:VAL120 4.4 14.4 1.0
CG2 A:VAL120 4.4 17.2 1.0
CA A:SER24 4.5 13.4 1.0
C A:GLY26 4.5 9.6 1.0
CA A:LEU25 4.7 11.6 1.0
N A:ASN27 4.7 10.3 1.0
O A:SER24 4.7 13.4 1.0
O A:HOH403 4.7 18.1 0.3
C A:GLN121 4.8 16.3 1.0
O A:HOH302 4.9 18.3 0.5

Chlorine binding site 4 out of 4 in 6yjx

Go back to Chlorine Binding Sites List in 6yjx
Chlorine binding site 4 out of 4 in the Structure of Hen Egg-White Lysozyme Crystallized with Pas Polypeptide


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 Crystallized with Pas Polypeptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl204

b:40.9
occ:1.00
 CE2 A:PHE38 3.7 13.0 1.0
NZ A:LYS33 3.9 25.6 1.0
O A:HOH417 4.0 24.9 0.5
CZ3 A:TRP123 4.0 18.5 1.0
CB A:ARG5 4.3 15.0 1.0
CD A:ARG5 4.3 17.0 1.0
CZ A:PHE38 4.4 12.4 1.0
CD A:LYS33 4.4 16.8 1.0
CE A:LYS33 4.4 21.1 1.0
CD2 A:PHE38 4.7 12.3 1.0
CG A:ARG5 4.7 15.9 1.0
O A:HOH417 4.8 29.8 0.5
CE3 A:TRP123 4.9 15.7 1.0
CH2 A:TRP123 4.9 20.8 1.0
NE A:ARG5 4.9 19.5 1.0

Reference:

A.Schiefner, R.Walser, M.Gebauer, A.Skerra. Proline/Alanine-Rich Sequence (Pas) Polypeptides As An Alternative to Peg Precipitants For Protein Crystallization. Acta Crystallogr.,Sect.F V. 76 320 2020.
ISSN: ESSN 2053-230X
PubMed: 32627748
DOI: 10.1107/S2053230X20008328
Page generated: Sat Dec 12 14:42:57 2020

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