3F5O Hydrolase date Nov 04, 2008
title Crystal Structure Of Hthem2(Undecan-2-One-Coa) Complex
authors H.Xu, W.Gong
compound source
Molecule: Thioesterase Superfamily Member 2
Chain: A, B, C, D, E, F, G, H
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: P 21 21 21
R_factor 0.199 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
91.032 110.632 119.819 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CL, COA, P6G, UOC enzyme
note 3F5O is a representative structure
F, A, E, B, H, C, D, G

Primary referenceThe mechanisms of human hotdog-fold thioesterase 2 (hTHEM2) substrate recognition and catalysis illuminated by a structure and function based analysis., Cao J, Xu H, Zhao H, Gong W, Dunaway-Mariano D, Biochemistry. 2009 Feb 17;48(6):1293-304. PMID:19170545
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (203 Kb) [Save to disk]
  • Biological Unit Coordinates (3f5o.pdb1.gz) 99 Kb
  • Biological Unit Coordinates (3f5o.pdb2.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 3F5O
  • CSU: Contacts of Structural Units for 3F5O
  • Structure Factors (1714 Kb)
  • Retrieve 3F5O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3F5O from S2C, [Save to disk]
  • Re-refined 3f5o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3F5O 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 3F5O
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3F5O, from MSDmotif at EBI
  • Fold representative 3f5o from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3f5o_F] [3f5o_D] [3f5o_A] [3f5o] [3f5o_H] [3f5o_E] [3f5o_B] [3f5o_G] [3f5o_C]
  • SWISS-PROT database: [Q9NPJ3]
  • Domain organization of [ACO13_HUMAN] by SWISSPFAM
  • Other resources with information on 3F5O
  • Community annotation for 3F5O 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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