2FLD Hydrolase Dna date Jan 05, 2006
title I-Msoi Re-Designed For Altered Dna Cleavage Specificity
authors J.Ashworth, C.M.Duarte, J.J.Havranek, D.Sussman, R.J.Monnat, B.L. D.Baker
compound source
Molecule: 5'-D(Gpcpapgpapapgpgptpcpgptpgpapg Gptptpcpcpg)-3';
Chain: C
Engineered: Yes
Mutation: Yes
Synthetic: Yes

Molecule: 5'-D(Cpgpgpapapcpgpgptpcptpcpapcpg Tptpcptpgpc)-3';
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna Endonuclease I-Msoi
Chain: A, B
Engineered: Yes

Organism_scientific: Monomastix Sp.
Organism_taxid: 141716
Strain: Oke-1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet
symmetry Space Group: P 1
R_factor 0.229 R_Free 0.271
length a length b length c angle alpha angle beta angle gamma
41.961 42.981 71.545 72.29 72.30 70.51
method X-Ray Diffractionresolution 2.00 Å
ligand CA, NA enzyme
A, B
  • endonuclease activity

  • Primary referenceComputational redesign of endonuclease DNA binding and cleavage specificity., Ashworth J, Havranek JJ, Duarte CM, Sussman D, Monnat RJ Jr, Stoddard BL, Baker D, Nature. 2006 Jun 1;441(7093):656-9. PMID:16738662
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk]
  • Biological Unit Coordinates (2fld.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 2FLD
  • CSU: Contacts of Structural Units for 2FLD
  • Likely Quarternary Molecular Structure file(s) for 2FLD
  • Structure Factors (386 Kb)
  • Retrieve 2FLD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FLD from S2C, [Save to disk]
  • Re-refined 2fld structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2FLD 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 2FLD
  • 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 2FLD, from MSDmotif at EBI
  • Fold representative 2fld from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2fld_B] [2fld_D] [2fld_A] [2fld] [2fld_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2FLD
  • Community annotation for 2FLD 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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