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Chlorine in PDB 5lsh: Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae

Enzymatic activity of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae

All present enzymatic activity of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae:
3.2.1.17;

Protein crystallography data

The structure of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae, PDB code: 5lsh was solved by R.Zhang, N.E.Nifantiev, V.Krylov, T.Luetteke, A.J.Scheidig, H.-C.Siebert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.27 / 1.06
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 33.108, 56.040, 60.531, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 20.3

Other elements in 5lsh:

The structure of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae (pdb code 5lsh). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae, PDB code: 5lsh:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 5lsh

Go back to Chlorine Binding Sites List in 5lsh
Chlorine binding site 1 out of 3 in the Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl201

b:13.0
occ:1.00
 NH1 A:ARG107 3.1 20.3 1.0
O A:HOH346 3.1 22.7 1.0
O A:HOH393 3.2 13.1 1.0
NH2 A:ARG107 3.6 12.7 1.0
CH2 A:TRP112 3.8 11.9 1.0
CZ A:ARG107 3.8 15.3 1.0
CG A:GLN117 4.4 10.9 1.0
CZ2 A:TRP112 4.4 10.5 1.0
NE2 A:GLN117 4.7 19.8 1.0
OD1 A:ASN118 4.7 19.3 1.0
CZ3 A:TRP112 4.8 11.6 1.0
CD A:GLN117 5.0 14.9 1.0

Chlorine binding site 2 out of 3 in 5lsh

Go back to Chlorine Binding Sites List in 5lsh
Chlorine binding site 2 out of 3 in the Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl202

b:11.8
occ:1.00
 ND2 A:ASN27 3.2 9.2 1.0
O A:HOH404 3.3 18.5 1.0
O A:HOH356 4.0 11.9 1.0
CG A:ASN27 4.3 7.6 1.0
O A:HOH393 4.5 13.1 1.0
OG A:SER24 4.5 8.7 1.0
OD1 A:ASN27 4.5 9.1 1.0

Chlorine binding site 3 out of 3 in 5lsh

Go back to Chlorine Binding Sites List in 5lsh
Chlorine binding site 3 out of 3 in the Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Human Lysozyme in Complex with A Tetrasaccharide Fragment of the O- Chain of Lps From Klebsiella Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl203

b:15.4
occ:1.00
 O A:HOH337 2.9 18.6 1.0
O A:HOH450 3.1 27.3 1.0
N A:ASP87 3.2 8.9 1.0
N A:ASN88 3.5 8.6 1.0
CB A:ASP87 3.7 9.6 1.0
CB A:GLN86 3.7 8.4 1.0
CA A:ASP87 3.8 8.8 1.0
C A:GLN86 4.0 8.4 1.0
CA A:GLN86 4.0 8.1 1.0
C A:ASP87 4.2 8.8 1.0
CG A:GLN86 4.3 9.4 1.0
CB A:ASN88 4.3 10.6 1.0
OE1 A:GLN86 4.4 11.7 1.0
O A:HOH352 4.5 17.4 1.0
CA A:ASN88 4.6 8.2 1.0
CG A:ASP87 4.6 9.8 1.0
CD A:GLN86 4.8 9.4 1.0

Reference:

R.Zhang, L.Wu, T.Eckert, M.Burg-Roderfeld, M.A.Rojas-Macias, T.Lutteke, V.B.Krylov, D.A.Argunov, A.Datta, P.Markart, A.Guenther, B.Norden, R.Schauer, A.Bhunia, M.A.Enani, M.Billeter, A.J.Scheidig, N.E.Nifantiev, H.C.Siebert. Lysozyme'S Lectin-Like Characteristics Facilitates Its Immune Defense Function. Q. Rev. Biophys. V. 50 E9 2017.
ISSN: ESSN 1469-8994
PubMed: 29233221
DOI: 10.1017/S0033583517000075
Page generated: Fri Jul 26 12:09:12 2024

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