2QHD Hydrolase date Jul 02, 2007
title Crystal Structure Of Ecarpholin S (Ser49-Pla2) Complexed Wit Acid
authors X.Zhou, T.C.Tan, S.Valiyaveettil, M.L.Go, R.M.Kini, J.Sivaraman
compound source
Molecule: Phospholipase A2
Chain: A, B
Synonym: Ecarpholin Slauric Acid Complex, Phosphatidylchol Acylhydrolase;
Ec: 3.1.1.4
Organism_scientific: Echis Carinatus
Organism_common: Saw-Scaled Viper
Organism_taxid: 40353
Other_details: Snake Venom Gland
symmetry Space Group: P 31 2 1
R_factor 0.228 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.096 62.096 124.252 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.95 Å
ligand DAO enzyme Hydrolase E.C.3.1.1.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural characterization of myotoxic ecarpholin S from Echis carinatus venom., Zhou X, Tan TC, Valiyaveettil S, Go ML, Kini RM, Velazquez-Campoy A, Sivaraman J, Biophys J. 2008 Oct;95(7):3366-80. Epub 2008 Jun 27. PMID:18586854
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (2qhd.pdb1.gz) 44 Kb
  • LPC: Ligand-Protein Contacts for 2QHD
  • CSU: Contacts of Structural Units for 2QHD
  • Likely Quarternary Molecular Structure file(s) for 2QHD
  • Structure Factors (236 Kb)
  • Retrieve 2QHD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2QHD from S2C, [Save to disk]
  • Re-refined 2qhd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2QHD 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 2QHD
  • 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
  • 3D motif for 2QHD, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2qhd] [2qhd_A] [2qhd_B]
  • SWISS-PROT database: [P48650]
  • Domain organization of [PA2N_ECHCA] by SWISSPFAM
  • Domain found in 2QHD: [PA2c ] by SMART
  • Other resources with information on 2QHD
  • Community annotation for 2QHD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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