2OST Hydrolase Dna date Feb 06, 2007
title The Structure Of A Bacterial Homing Endonuclease : I-Ssp6803
authors L.Zhao, R.P.Bonocora, D.A.Shub, B.L.Stoddard
compound source
Molecule: Synthetic Dna 29 Mer
Chain: Y
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Construct Containing Natural Homin I-Sspi6803i;

Molecule: Synthetic Dna 29 Mer
Chain: Z
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Construct Containing Natural Homin I-Sspi6803i;

Molecule: Putative Endonuclease
Chain: A, B, C, D
Engineered: Yes
Mutation: Yes

Organism_scientific: Synechocystis Sp.
Organism_taxid: 1148
Strain: Pcc 6803
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Pasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: I 4 2 2
R_factor 0.278 R_Free 0.328
crystal
cell
length a length b length c angle alpha angle beta angle gamma
143.777 143.777 319.179 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand CA enzyme
note 2OST is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • nuclease activity
  • endonuclease activity


  • Primary referenceThe restriction fold turns to the dark side: a bacterial homing endonuclease with a PD-(D/E)-XK motif., Zhao L, Bonocora RP, Shub DA, Stoddard BL, EMBO J. 2007 May 2;26(9):2432-42. Epub 2007 Apr 5. PMID:17410205
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (2ost.pdb1.gz) 112 Kb
  • LPC: Ligand-Protein Contacts for 2OST
  • CSU: Contacts of Structural Units for 2OST
  • Likely Quarternary Molecular Structure file(s) for 2OST
  • Structure Factors (927 Kb)
  • Retrieve 2OST in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OST from S2C, [Save to disk]
  • Re-refined 2ost structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OST 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 2OST
  • 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 2OST, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ost_C] [2ost_D] [2ost_B] [2ost_Y] [2ost_A] [2ost_Z] [2ost]
  • SWISS-PROT database: [Q57253]
  • Domain organization of [Q57253_SYNY3] by SWISSPFAM
  • Other resources with information on 2OST
  • Community annotation for 2OST 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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