Chlorine in PDB 3agh: X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg

All present enzymatic activity of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg:
3.2.1.17;

The structure of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg, PDB code: 3agh was solved by L.Ito, K.Shiraki, K.Hasegawa, S.Baba, T.Kumasaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.15 / 1.49
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.299, 78.299, 37.284, 90.00, 90.00, 90.00
R / Rfree (%)	17.5 / 20.5

The structure of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Chlorine atom in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg (pdb code 3agh). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg, PDB code: 3agh:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl132 b:12.8 occ:1.00 O A:HOH186 3.1 9.2 1.0 O A:HOH250 3.2 18.5 1.0 N A:THR69 3.3 10.0 1.0 O A:HOH233 3.3 20.4 1.0 O A:THR69 3.4 11.8 1.0 C A:GLY67 3.5 11.1 1.0 N A:ARG68 3.6 10.6 0.4 OG A:SER72 3.6 12.3 1.0 N A:ARG68 3.6 10.7 0.6 CA A:GLY67 3.6 10.4 1.0 N A:GLY67 3.7 9.6 1.0 C A:THR69 3.7 10.4 1.0 OD1 A:ASN65 3.7 11.4 1.0 O A:HOH197 3.8 10.2 1.0 CA A:THR69 4.0 10.0 1.0 O A:GLY67 4.1 12.7 1.0 C A:ARG68 4.3 10.1 0.4 C A:ARG68 4.3 9.9 0.6 CB A:THR69 4.3 9.2 1.0 OD1 A:ASP66 4.3 7.0 1.0 CA A:ARG68 4.3 10.2 0.4 CA A:ARG68 4.4 10.4 0.6 O A:HOH297 4.5 24.1 1.0 N A:PRO70 4.5 11.4 1.0 NA A:NA131 4.7 10.0 1.0 O A:HOH219 4.8 16.4 0.5 C A:ASP66 4.8 8.6 1.0 CB A:SER72 4.8 12.7 1.0 OG1 A:THR69 4.9 9.8 1.0 CG A:ASN65 4.9 10.0 1.0 N A:ASP66 4.9 8.0 1.0 CA A:PRO70 5.0 12.4 1.0

Chlorine binding site 2 out of 4 in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl133 b:17.5 occ:1.00 O A:HOH259 2.9 36.9 1.0 OG A:SER24 3.0 13.7 1.0 N A:GLY26 3.1 8.7 1.0 O A:HOH247 3.4 36.3 1.0 CA A:GLY26 3.4 8.6 1.0 CB A:SER24 3.5 11.2 1.0 CA A:GLN121 3.6 14.5 1.0 CD1 A:ILE124 3.9 18.9 1.0 CB A:GLN121 3.9 15.9 1.0 N A:GLN121 4.0 13.2 1.0 N A:LEU25 4.2 9.3 1.0 CG A:GLN121 4.2 21.2 1.0 O A:VAL120 4.2 10.9 1.0 C A:LEU25 4.3 9.0 1.0 CG1 A:ILE124 4.3 14.4 1.0 C A:VAL120 4.3 12.4 1.0 CG2 A:VAL120 4.3 12.8 1.0 C A:SER24 4.3 10.0 1.0 C A:GLY26 4.5 8.3 1.0 N A:ASN27 4.6 8.1 1.0 CA A:SER24 4.6 9.4 1.0 CA A:LEU25 4.7 9.4 1.0 O A:SER24 4.8 11.0 1.0 C A:GLN121 4.8 12.4 1.0 O A:HOH280 5.0 34.3 1.0

Chlorine binding site 3 out of 4 in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl134 b:11.9 occ:1.00 O A:HOH161 2.9 29.1 1.0 OH A:TYR23 3.0 7.6 1.0 O A:HOH183 3.2 10.2 1.0 CZ A:TYR23 3.7 7.1 1.0 CE2 A:TYR23 3.7 6.7 1.0 CA A:GLY104 4.1 7.2 1.0 O A:ARG21 4.6 11.0 1.0 N A:GLY104 4.6 9.0 1.0 CE1 A:TYR23 4.9 6.8 1.0 CD2 A:TYR23 4.9 7.5 1.0

Chlorine binding site 4 out of 4 in the X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of X-Ray Analysis of Lysozyme in the Presence of 200 Mm Arg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl135 b:16.8 occ:1.00 O A:HOH182 3.0 9.1 1.0 O A:HOH191 3.5 18.2 1.0 CG2 A:VAL2 3.7 10.4 1.0 O A:HOH299 4.1 26.5 1.0 N A:VAL2 4.2 10.3 1.0 CA A:LYS1 4.5 10.5 1.0 CB A:VAL2 4.5 10.3 1.0 C A:LYS1 4.6 9.7 1.0 N A:LYS1 4.6 10.3 1.0 NE2 A:GLN41 4.9 8.3 1.0 CA A:VAL2 4.9 10.4 1.0

L.Ito, K.Shiraki, T.Matsuura, M.Okumura, K.Hasegawa, S.Baba, H.Yamaguchi, T.Kumasaka. High-Resolution X-Ray Analysis Reveals Binding of Arginine to Aromatic Residues of Lysozyme Surface: Implication of Suppression of Protein Aggregation By Arginine Protein Eng.Des.Sel. V. 24 269 2011.
ISSN: ISSN 1741-0126
PubMed: 21084280
DOI: 10.1093/PROTEIN/GZQ101