5I9I	Hydrolase Hydrolase Inhibitor	date	Feb 20, 2016
title	Crystal Structure Of Lp_pla2 In Complex With Darapladib
authors	Q.F.Liu, Y.C.Xu
compound		source
Molecule: Platelet-Activating Factor Acetylhydrolase Chain: A, B Fragment: Unp Residues 47-429 Synonym: Paf Acetylhydrolase,1-Alkyl-2-Acetylglycerophospho Esterase,2-Acetyl-1-Alkylglycerophosphocholine Esterase,Gro Phospholipase A2,Gviia-Pla2,Ldl-Associated Phospholipase A2 Pla(2),Paf 2-Acylhydrolase; Ec: 3.1.1.47 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pla2g7, Pafah Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta2 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex-6p-1
symmetry	Space Group: C 1 2 1	R_factor 0.191 R_Free 0.261
crystal cell	length a length b length c angle alpha angle beta angle gamma 115.900 82.410 96.470 90.00 115.50 90.00
method	X-Ray Diffraction	resolution	2.70 Å
ligand	5HV, SO4	enzyme	Hydrolase E.C.3.1.1.47 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural and Thermodynamic Characterization of Protein-Ligand Interactions Formed between Lipoprotein-Associated Phospholipase A2 and Inhibitors., Liu Q, Chen X, Chen W, Yuan X, Su H, Shen J, Xu Y, J Med Chem. 2016 May 26;59(10):5115-20. doi: 10.1021/acs.jmedchem.6b00282. Epub, 2016 Apr 26. PMID:27078579

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk] Biological Unit Coordinates (5i9i.pdb1.gz) 60 Kb Biological Unit Coordinates (5i9i.pdb2.gz) 58 Kb LPC: Ligand-Protein Contacts for 5I9I CSU: Contacts of Structural Units for 5I9I Structure Factors (344 Kb) Retrieve 5I9I in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5I9I from S2C, [Save to disk] Re-refined 5i9i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5I9I in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 5I9I

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5i9i] [5i9i_B] [5i9i_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5I9I

Community annotation for 5I9I at PDBWiki (http://pdbwiki.org)

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---