5XVO Immune System date Jun 28, 2017
title E. Fae Cas1-Cas2prespacertarget Ternary Complex Revealing Sampling And Half-Integration States
authors Y.Xiao, S.Ng, K.H.Nam, A.Ke
compound source
Molecule: Crispr-Associated Endonuclease Cas1
Chain: A, B, C, D, I, J, K, L
Ec: 3.1.-.-
Engineered: Yes
Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498
Gene: Cas1, Hmpref9501_02814
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Crispr-Associated Endoribonuclease Cas2
Chain: E, F, M, N
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498
Gene: Cas2, Hmpref9501_02813
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (28-Mer)
Chain: G, O, P
Engineered: Yes
Other_details: Dna

Synthetic: Yes
Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498

Molecule: Dna (5'-D(Pcpcpgpapg)-3')
Chain: H
Engineered: Yes
Other_details: Dna

Synthetic: Yes
Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498

Molecule: Dna (46-Mer)
Chain: Q
Engineered: Yes
Other_details: Dna

Synthetic: Yes
Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498

Molecule: Dna (69-Mer)
Chain: R
Engineered: Yes
Other_details: Dna

Synthetic: Yes
Organism_scientific: Enterococcus Faecalis Tx0027
Organism_taxid: 749498
symmetry Space Group: P 1 21 1
R_factor 0.194 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
131.893 124.800 157.905 90.00 106.50 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand MG enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, J, K, B, C, D, I, L
  • nuclease activity
  • endonuclease activity


  • F, N, E, M
  • nuclease activity
  • endonuclease activity
  • endoribonuclease activity


  • Primary referenceHow type II CRISPR-Cas establish immunity through Cas1-Cas2-mediated spacer integration., Xiao Y, Ng S, Nam KH, Ke A, Nature. 2017 Sep 4. doi: 10.1038/nature24020. PMID:28869593
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (539 Kb) [Save to disk]
  • Biological Unit Coordinates (5xvo.pdb1.gz) 287 Kb
  • Biological Unit Coordinates (5xvo.pdb2.gz) 250 Kb
  • Biological Unit Coordinates (5xvo.pdb3.gz) 531 Kb
  • LPC: Ligand-Protein Contacts for 5XVO
  • CSU: Contacts of Structural Units for 5XVO
  • Structure Factors (2593 Kb)
  • Retrieve 5XVO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XVO from S2C, [Save to disk]
  • View 5XVO 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 5XVO
  • 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
  • Fold representative 5xvo from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xvo_G] [5xvo_K] [5xvo_Q] [5xvo_I] [5xvo_A] [5xvo_D] [5xvo_M] [5xvo_N] [5xvo_E] [5xvo_J] [5xvo_H] [5xvo_F] [5xvo_P] [5xvo_R] [5xvo_O] [5xvo_B] [5xvo_L] [5xvo_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XVO
  • Community annotation for 5XVO at PDBWiki (http://pdbwiki.org)

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