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Chlorine in PDB 5ahg: Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine

Enzymatic activity of Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine

All present enzymatic activity of Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine:
3.4.21.5;

Protein crystallography data

The structure of Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine, PDB code: 5ahg was solved by E.Ruehmann, A.Heine, G.Klebe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.41 / 1.24
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 70.222, 71.263, 72.216, 90.00, 100.48, 90.00
R / Rfree (%) 12.3 / 14.4

Other elements in 5ahg:

The structure of Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine (pdb code 5ahg). 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 Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine, PDB code: 5ahg:

Chlorine binding site 1 out of 1 in 5ahg

Go back to Chlorine Binding Sites List in 5ahg
Chlorine binding site 1 out of 1 in the Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Thrombin in Complex with ((4-Chlorophenyl)Sulfamoyl))Diemethylamine within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl1253

b:17.5
occ:0.75
CL H:Y4L1253 0.0 17.5 0.8
C5 H:Y4L1253 1.7 18.0 0.8
HG11 H:VAL213 2.6 15.6 1.0
C4 H:Y4L1253 2.7 17.6 0.8
C6 H:Y4L1253 2.7 20.4 0.8
H H:PHE227 3.0 12.9 1.0
HA3 H:GLY226 3.1 12.9 1.0
O H:PHE227 3.2 11.1 1.0
HB1 H:ALA190 3.3 16.2 1.0
O H:TRP215 3.3 12.4 1.0
HA2 H:GLY226 3.4 12.9 1.0
H H:SER214 3.5 12.5 1.0
N H:PHE227 3.5 10.8 1.0
CG1 H:VAL213 3.5 13.0 1.0
H H:TRP215 3.5 13.6 1.0
HG13 H:VAL213 3.6 15.6 1.0
CA H:GLY226 3.6 10.7 1.0
HA H:VAL213 3.8 12.1 1.0
C H:GLY226 3.8 10.4 1.0
C H:TRP215 3.9 12.2 1.0
CZ H:TYR228 3.9 10.8 1.0
N H:TRP215 3.9 11.3 1.0
C7 H:Y4L1253 4.0 21.8 0.8
C3 H:Y4L1253 4.0 21.4 0.8
C H:PHE227 4.0 10.6 1.0
HG12 H:VAL213 4.0 15.6 1.0
N H:SER214 4.1 10.4 1.0
OH H:TYR228 4.1 12.3 1.0
CB H:ALA190 4.1 13.5 1.0
CE1 H:TYR228 4.2 11.0 1.0
HB3 H:ALA190 4.2 16.2 1.0
CE2 H:TYR228 4.2 10.7 1.0
HH H:TYR228 4.3 14.8 1.0
CA H:PHE227 4.4 10.7 1.0
HE1 H:TYR228 4.4 13.2 1.0
CA H:VAL213 4.4 10.1 1.0
CA H:TRP215 4.4 12.1 1.0
HE2 H:TYR228 4.4 12.8 1.0
HB2 H:ALA190 4.5 16.2 1.0
C2 H:Y4L1253 4.5 21.8 0.8
CB H:VAL213 4.5 11.2 1.0
HG23 H:VAL213 4.5 14.5 1.0
HA H:TRP215 4.6 14.5 1.0
HA3 H:GLY216 4.6 17.6 1.0
C H:VAL213 4.6 10.4 1.0
OD1 H:ASP189 4.6 13.4 1.0
N H:GLY216 4.6 13.4 1.0
CD1 H:TYR228 4.6 10.4 1.0
C H:SER214 4.6 11.1 1.0
CD2 H:TYR228 4.7 10.0 1.0
H H:ALA190 4.7 14.5 1.0
O H:HOH2215 4.8 12.8 1.0
O H:GLY226 4.8 10.8 1.0
CG H:TYR228 4.9 9.8 1.0
CA H:SER214 4.9 10.7 1.0
N H:GLY226 5.0 11.7 1.0
CA H:GLY216 5.0 14.7 1.0

Reference:

E.Ruehmann, M.Betz, A.Heine, G.Klebe. Fragments Can Bind Either More Enthalpy or Entropy-Driven: Crystal Structures and Residual Hydration Pattern Suggest Why. J.Med.Chem. V. 58 6960 2015.
ISSN: ISSN 0022-2623
PubMed: 26270568
DOI: 10.1021/ACS.JMEDCHEM.5B00812
Page generated: Fri Jul 26 05:15:37 2024

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