3A6O Hydrolase date Sep 07, 2009
title Crystal Structure Of Thermoactinomyces Vulgaris R-47 Alpha- Amylase 2acarbose Complex
authors A.Ohtaki, M.Mizuno, T.Tonozuka, Y.Sakano, S.Kamitori
compound source
Molecule: Neopullulanase 2
Chain: A, B
Synonym: Alpha-Amylase II, Tva II
Engineered: Yes
Organism_scientific: Thermoactinomyces Vulgaris
Organism_taxid: 2026
Strain: R-47
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 21 21 21
R_factor 0.157 R_Free 0.231
length a length b length c angle alpha angle beta angle gamma
114.599 119.258 113.007 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand ARE, CA enzyme Hydrolase E.C. BRENDA
note 3A6O supersedes 1VFK
A, B

Primary referenceComplex structures of Thermoactinomyces vulgaris R-47 alpha-amylase 2 with acarbose and cyclodextrins demonstrate the multiple substrate recognition mechanism., Ohtaki A, Mizuno M, Tonozuka T, Sakano Y, Kamitori S, J Biol Chem. 2004 Jul 23;279(30):31033-40. Epub 2004 May 11. PMID:15138257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (210 Kb) [Save to disk]
  • Biological Unit Coordinates (3a6o.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (3a6o.pdb2.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 3A6O
  • CSU: Contacts of Structural Units for 3A6O
  • Structure Factors (604 Kb)
  • Retrieve 3A6O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3A6O from S2C, [Save to disk]
  • Re-refined 3a6o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3A6O 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 3A6O
  • 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 3A6O, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3a6o_A] [3a6o_B] [3a6o]
  • SWISS-PROT database: [Q08751]
  • Domain organization of [NEPU2_THEVU] by SWISSPFAM
  • Domain found in 3A6O: [Aamy ] by SMART
  • Other resources with information on 3A6O
  • Community annotation for 3A6O 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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