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Chlorine in PDB 5jas: 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: 5jas 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) 45.35 / 2.06
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 99.496, 90.690, 51.253, 90.00, 111.67, 90.00
R / Rfree (%) 15.5 / 22.2

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

Chlorine binding site 1 out of 2 in 5jas

Go back to Chlorine Binding Sites List in 5jas
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:38.8
occ:1.00
N A:HIS351 3.2 16.0 1.0
NZ A:LYS370 3.4 98.9 1.0
CE A:LYS370 3.6 96.1 1.0
CB A:HIS351 3.7 14.4 1.0
N A:PHE322 3.7 21.3 1.0
CA A:PHE322 3.8 19.4 1.0
O A:HOH643 3.8 21.3 1.0
C A:TYR321 3.9 25.1 1.0
CB A:VAL350 3.9 21.5 1.0
CB A:PHE322 4.0 19.5 1.0
CA A:VAL350 4.0 17.9 1.0
CA A:HIS351 4.1 14.5 1.0
O A:TYR321 4.1 26.0 1.0
C A:VAL350 4.1 20.2 1.0
CB A:TYR321 4.3 25.9 1.0
CG1 A:VAL350 4.4 22.4 1.0
CD1 A:PHE322 4.6 19.6 1.0
CA A:TYR321 4.7 23.9 1.0
CG A:PHE322 4.8 18.9 1.0
CG A:HIS351 4.9 14.5 1.0
OG A:SER319 4.9 23.3 1.0
CD A:LYS370 5.0 87.8 1.0

Chlorine binding site 2 out of 2 in 5jas

Go back to Chlorine Binding Sites List in 5jas
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:22.2
occ:1.00
N A:ALA326 3.2 22.4 1.0
CB A:ALA326 3.6 19.6 1.0
CD A:PRO325 3.6 22.6 1.0
CD1 A:TYR324 3.7 22.6 1.0
N A:PRO325 3.8 20.3 1.0
CB A:PRO325 3.9 22.5 1.0
CB A:TYR324 3.9 20.1 1.0
CA A:ALA326 4.0 20.2 1.0
CA A:PRO325 4.1 19.4 1.0
C A:PRO325 4.1 25.4 1.0
CG A:PRO325 4.2 26.9 1.0
C A:TYR324 4.3 23.9 1.0
CG A:TYR324 4.3 20.5 1.0
CA A:TYR324 4.7 19.5 1.0
CE1 A:TYR324 4.7 22.3 1.0
O A:TYR324 4.9 23.5 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 09:55:17 2024

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