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Chlorine in PDB 4ytb: Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln.

Protein crystallography data

The structure of Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln., PDB code: 4ytb was solved by T.Goulas, D.Mizgalska, I.Garcia-Ferrer, T.Kantyka, T.Guevara, B.Szmigielski, A.Sroka, C.Millan, I.Uson, F.Veillard, B.Potempa, P.Mydel, M.Sola, J.Potempa, F.X.Gomis-Ruth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.15 / 1.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.534, 71.306, 105.664, 90.00, 90.00, 90.00
R / Rfree (%) 14.6 / 14.9

Other elements in 4ytb:

The structure of Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln. also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln. (pdb code 4ytb). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln., PDB code: 4ytb:

Chlorine binding site 1 out of 1 in 4ytb

Go back to Chlorine Binding Sites List in 4ytb
Chlorine binding site 1 out of 1 in the Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Porphyromonas Gingivalis Peptidylarginine Deiminase (Ppad) in Complex with Dipeptide Asp-Gln. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl513

b:58.4
occ:1.00
O A:HOH673 3.4 15.5 1.0
O A:HOH741 3.6 25.0 1.0
O A:HOH775 3.6 17.5 1.0
OG A:SER203 4.6 17.3 1.0
CB A:SER204 4.7 16.2 1.0
O A:HOH1061 4.7 35.4 1.0
OG A:SER204 4.8 19.1 1.0
N A:SER204 4.9 12.0 1.0

Reference:

T.Goulas, D.Mizgalska, I.Garcia-Ferrer, T.Kantyka, T.Guevara, B.Szmigielski, A.Sroka, C.Millan, I.Uson, F.Veillard, B.Potempa, P.Mydel, M.Sola, J.Potempa, F.X.Gomis-Ruth. Structure and Mechanism of A Bacterial Host-Protein Citrullinating Virulence Factor, Porphyromonas Gingivalis Peptidylarginine Deiminase. Sci Rep V. 5 11969 2015.
ISSN: ESSN 2045-2322
PubMed: 26132828
DOI: 10.1038/SREP11969
Page generated: Sat Dec 12 11:26:20 2020

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