5DS6 Hydrolase Dna date Sep 16, 2015
title Crystal Structure The Escherichia Coli Cas1-Cas2 Complex Bou Protospacer Dna With Splayed Ends
authors J.K.Nunez, L.B.Harrington, P.J.Kranzusch, A.N.Engelman, J.A.Doud
compound source
Molecule: Crispr-Associated Endonuclease Cas1
Chain: A, B, C, D
Ec: 3.1.-.-
Engineered: Yes
Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Ygbt, Cas1, B2755, Jw2725
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Ygbf, Cas2, B2754, Jw5438
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (29-Mer)
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Enterobacteria Phage M13
Organism_taxid: 10870

Molecule: Dna (28-Mer)
Chain: H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Enterobacteria Phage M13
Organism_taxid: 10870
symmetry Space Group: P 21 21 21
R_factor 0.231 R_Free 0.275
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.020 123.006 196.012 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.35 Å
ligand
enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • nuclease activity
  • endonuclease activity


  • F, E
  • nuclease activity
  • endonuclease activity


  • Primary referenceForeign DNA capture during CRISPR-Cas adaptive immunity., Nunez JK, Harrington LB, Kranzusch PJ, Engelman AN, Doudna JA, Nature. 2015 Nov 26;527(7579):535-8. doi: 10.1038/nature15760. Epub 2015 Oct 21. PMID:26503043
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (466 Kb) [Save to disk]
  • Biological Unit Coordinates (5ds6.pdb1.gz) 454 Kb
  • CSU: Contacts of Structural Units for 5DS6
  • Structure Factors (1862 Kb)
  • Retrieve 5DS6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DS6 from S2C, [Save to disk]
  • Re-refined 5ds6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DS6 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 5DS6
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5ds6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ds6_D] [5ds6] [5ds6_E] [5ds6_F] [5ds6_B] [5ds6_H] [5ds6_G] [5ds6_C] [5ds6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5DS6
  • Community annotation for 5DS6 at PDBWiki (http://pdbwiki.org)

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