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Chlorine in PDB 5jan: Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening

Enzymatic activity of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening

All present enzymatic activity of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening:
3.1.1.47;

Protein crystallography data

The structure of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening, PDB code: 5jan was solved by P.J.Day, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.33 / 2.12
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 100.373, 92.080, 48.273, 90.00, 112.60, 90.00
R / Rfree (%) 22.3 / 26.7

Other elements in 5jan:

The structure of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening (pdb code 5jan). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening, PDB code: 5jan:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 5jan

Go back to Chlorine Binding Sites List in 5jan
Chlorine binding site 1 out of 2 in the Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl501

b:45.8
occ:1.00
N A:HIS351 3.5 27.3 1.0
O A:HOH666 3.5 25.3 1.0
N A:PHE322 3.7 33.2 1.0
CB A:HIS351 3.8 25.6 1.0
CA A:PHE322 3.8 31.8 1.0
C A:TYR321 3.9 35.3 1.0
CB A:VAL350 3.9 29.8 1.0
O A:TYR321 4.0 36.2 1.0
CB A:PHE322 4.0 30.3 1.0
CA A:VAL350 4.1 28.6 1.0
CA A:HIS351 4.3 25.8 1.0
CB A:TYR321 4.3 40.2 1.0
C A:VAL350 4.3 27.4 1.0
CG1 A:VAL350 4.4 31.9 1.0
CD1 A:PHE322 4.6 30.2 1.0
CA A:TYR321 4.7 37.7 1.0
CG A:PHE322 4.9 29.9 1.0
OG A:SER319 4.9 28.0 1.0

Chlorine binding site 2 out of 2 in 5jan

Go back to Chlorine Binding Sites List in 5jan
Chlorine binding site 2 out of 2 in the Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-Pla2) Discovered Through X-Ray Fragment Screening within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl502

b:32.0
occ:1.00
N A:ALA326 3.3 34.1 1.0
CD A:PRO325 3.6 35.9 1.0
CB A:ALA326 3.6 32.5 1.0
CD1 A:TYR324 3.9 31.4 1.0
N A:PRO325 3.9 33.9 1.0
CB A:PRO325 4.0 36.7 1.0
CA A:ALA326 4.1 32.9 1.0
CG A:PRO325 4.1 37.6 1.0
CA A:PRO325 4.3 34.3 1.0
C A:PRO325 4.3 33.6 1.0
CB A:TYR324 4.3 32.6 1.0
C A:TYR324 4.5 32.3 1.0
CG A:TYR324 4.5 30.9 1.0
CE1 A:TYR324 4.8 30.1 1.0
CA A:TYR324 5.0 32.2 1.0

Reference:

A.J.Woolford, J.E.Pero, S.Aravapalli, V.Berdini, J.E.Coyle, P.J.Day, A.M.Dodson, P.Grondin, F.P.Holding, L.Y.Lee, P.Li, E.S.Manas, J.Marino, A.C.Martin, B.W.Mccleland, R.L.Mcmenamin, C.W.Murray, C.E.Neipp, L.W.Page, V.K.Patel, F.Potvain, S.Rich, R.A.Rivero, K.Smith, D.O.Somers, L.Trottet, R.Velagaleti, G.Williams, R.Xie. Exploitation of A Novel Binding Pocket in Human Lipoprotein-Associated Phospholipase A2 (Lp-PLA2) Discovered Through X-Ray Fragment Screening. J.Med.Chem. V. 59 5356 2016.
ISSN: ISSN 0022-2623
PubMed: 27167608
DOI: 10.1021/ACS.JMEDCHEM.6B00212
Page generated: Sat Jul 12 03:32:23 2025

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