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Chlorine in PDB 5jau: 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: 5jau 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) 47.81 / 1.95
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 99.783, 90.533, 51.499, 90.00, 111.83, 90.00
R / Rfree (%) 20.2 / 24.4

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 5jau). 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: 5jau:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 5jau

Go back to Chlorine Binding Sites List in 5jau
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:28.4
occ:1.00
N A:ALA326 3.2 27.5 1.0
CD A:PRO325 3.5 29.1 1.0
CB A:ALA326 3.7 28.2 1.0
N A:PRO325 3.7 27.1 1.0
CD1 A:TYR324 3.8 30.1 1.0
CB A:TYR324 4.0 26.7 1.0
CB A:PRO325 4.0 29.8 1.0
CA A:ALA326 4.0 27.8 1.0
C A:PRO325 4.1 30.6 1.0
CA A:PRO325 4.1 27.5 1.0
CG A:PRO325 4.2 34.4 1.0
C A:TYR324 4.3 30.2 1.0
CG A:TYR324 4.4 27.2 1.0
CA A:TYR324 4.7 26.8 1.0
CE1 A:TYR324 4.9 32.4 1.0
O A:TYR324 4.9 29.8 1.0

Chlorine binding site 2 out of 2 in 5jau

Go back to Chlorine Binding Sites List in 5jau
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:Cl503

b:35.9
occ:1.00
N A:HIS351 3.3 24.5 1.0
O A:HOH665 3.7 24.8 1.0
N A:PHE322 3.7 29.6 1.0
CA A:PHE322 3.7 26.6 1.0
CB A:HIS351 3.7 23.2 1.0
CB A:VAL350 3.9 25.7 1.0
CB A:PHE322 3.9 26.7 1.0
C A:TYR321 3.9 33.0 1.0
NZ A:LYS370 3.9 0.7 1.0
CA A:VAL350 4.0 24.4 1.0
CA A:HIS351 4.1 24.4 1.0
O A:TYR321 4.1 31.9 1.0
C A:VAL350 4.2 26.1 1.0
CB A:TYR321 4.3 34.2 1.0
CE A:LYS370 4.3 0.4 1.0
CG1 A:VAL350 4.4 27.7 1.0
CD1 A:PHE322 4.5 27.5 1.0
CA A:TYR321 4.7 31.3 1.0
CG A:PHE322 4.7 27.6 1.0
OG A:SER319 4.8 24.6 1.0
O A:HOH965 4.8 53.0 1.0
CG A:HIS351 5.0 24.5 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: Fri Jul 26 09:55:54 2024

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