5F9R Hydrolase Dna Rna date Dec 10, 2015
title Crystal Structure Of Catalytically-Active Streptococcus Pyog Crispr-Cas9 In Complex With Single-Guided Rna And Double-St Primed For Target Dna Cleavage
authors F.Jiang, J.A.Doudna
compound source
Molecule: Crispr-Associated Endonuclease Cas9csn1
Chain: B
Synonym: Spycas9
Ec: 3.1.-.-
Engineered: Yes
 Organism_scientific: Streptococcus Pyogenes Serotype M1
Organism_taxid: 301447
Gene: Cas9, Csn1, Spy_1046
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rna (116-Mer)
Chain: A
Engineered: Yes
Other_details: Gtp
Synthetic: Yes
Organism_scientific: Streptococcus Pyogenes Mgas8232
Organism_taxid: 186103
Other_details: Rna Was Prepared By In Vitro Transcription W Rna Polymerase;

Molecule: Dna (30-Mer)
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Lambdapapillomavirus 1
Organism_taxid: 181667

Molecule: Dna (5'- D(Paptpgpapgpapcpgpcptpgpgpapgptpapcpapc
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Lambdapapillomavirus 1
Organism_taxid: 181667
symmetry Space Group: F 2 2 2
R_factor 0.237 R_Free 0.299
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.940 230.100 417.650 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand GTP, SO4 enzyme Hydrolase E.C.3.1 BRENDA
Gene SPY
Gene
Ontology
ChainFunctionProcessComponent
B
  • nuclease activity
  • endonuclease activity
  • exonuclease activity
  • 3'-5' exonuclease activity


    • Primary referenceStructures of a CRISPR-Cas9 R-loop complex primed for DNA cleavage., Jiang F, Taylor DW, Chen JS, Kornfeld JE, Zhou K, Thompson AJ, Nogales E, Doudna JA, Science. 2016 Jan 14. pii: aad8282. PMID:26841432
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (282 Kb) [Save to disk]
  • Biological Unit Coordinates (5f9r.pdb1.gz) 274 Kb
  • LPC: Ligand-Protein Contacts for 5F9R
  • CSU: Contacts of Structural Units for 5F9R
  • Structure Factors (3190 Kb)
  • Retrieve 5F9R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5F9R from S2C, [Save to disk]
  • Re-refined 5f9r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5F9R 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 5F9R
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5f9r] [5f9r_B] [5f9r_A] [5f9r_C] [5f9r_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5F9R: [HNHc ] by SMART
    • Other resources with information on 5F9R
  • Community annotation for 5F9R at PDBWiki (http://pdbwiki.org)

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