5B2S Hydrolase Rna Dna date Feb 02, 2016
title Crystal Structure Of The Streptococcus Pyogenes Cas9 Eqr Var Complex With Sgrna And Target Dna (Tgag Pam)
authors S.Hirano, H.Nishimasu, R.Ishitani, O.Nureki
compound source
Molecule: Guide Rna
Chain: A
Engineered: Yes
Synthetic: Yes
Organism_scientific: Streptococcus Pyogenes
Organism_taxid: 1314
Other_details: In Vitro Transcription

Molecule: Crispr-Associated Endonuclease Cas9
Chain: B
Synonym: Spycas9
Ec: 3.1.-.-
Engineered: Yes
Mutation: Yes

Organism_scientific: Streptococcus Pyogenes Serotype M1
Organism_taxid: 301447
Strain: Serotype M1
Gene: Cas9, Csn1, Spy_1046
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Target Dna
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Streptococcus Pyogenes
Organism_taxid: 1314
Other_details: Chemical Synthesis

Molecule: Non-Target Dna, Dna (5'-D(Tpgpapgpaptptpg
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Streptococcus Pyogenes
Organism_taxid: 1314
symmetry Space Group: C 1 2 1
R_factor 0.207 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
178.016 67.822 187.567 90.00 111.12 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand ACT, EDO, K, MG enzyme Hydrolase E.C.3.1 BRENDA
Gene SPY
Gene
Ontology
ChainFunctionProcessComponent
B
  • nuclease activity
  • endonuclease activity
  • exonuclease activity
  • 3'-5' exonuclease activity


  • Primary referenceStructural Basis for the Altered PAM Specificities of Engineered CRISPR-Cas9., Hirano S, Nishimasu H, Ishitani R, Nureki O, Mol Cell. 2016 Mar 17;61(6):886-94. doi: 10.1016/j.molcel.2016.02.018. PMID:26990991
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (554 Kb) [Save to disk]
  • Biological Unit Coordinates (5b2s.pdb1.gz) 543 Kb
  • LPC: Ligand-Protein Contacts for 5B2S
  • CSU: Contacts of Structural Units for 5B2S
  • Structure Factors (6454 Kb)
  • Retrieve 5B2S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5B2S from S2C, [Save to disk]
  • Re-refined 5b2s structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5B2S 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 5B2S
  • 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: [5b2s_D] [5b2s] [5b2s_A] [5b2s_C] [5b2s_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5B2S
  • Community annotation for 5B2S at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science