5ID6 Hydrolase date Feb 24, 2016
title Structure Of Cpf1rna Complex
authors D.Dong, K.Ren, X.Qiu, J.Wang, Z.Huang
compound source
Molecule: Cpf1
Chain: A
Engineered: Yes
 Organism_scientific: Lachnospiraceae Bacterium Nd2006
Organism_taxid: 1410628
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Rna (5'- R(Papapupupupcpupapcpupapapgpupgpupapgpa 3');
Chain: G
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: C 1 2 1
R_factor 0.202 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
168.352 83.011 124.086 90.00 106.72 90.00
method X-Ray Diffractionresolution 2.38 Å
ligand MG, MSE enzyme
Primary referenceThe crystal structure of Cpf1 in complex with CRISPR RNA., Dong D, Ren K, Qiu X, Zheng J, Guo M, Guan X, Liu H, Li N, Zhang B, Yang D, Ma C, Wang S, Wu D, Ma Y, Fan S, Wang J, Gao N, Huang Z, Nature. 2016 Apr 28;532(7600):522-6. doi: 10.1038/nature17944. Epub 2016 Apr 20. PMID:27096363
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (452 Kb) [Save to disk]
  • Biological Unit Coordinates (5id6.pdb1.gz) 444 Kb
  • LPC: Ligand-Protein Contacts for 5ID6
  • CSU: Contacts of Structural Units for 5ID6
  • Structure Factors (1294 Kb)
  • Retrieve 5ID6 in mmCIF format [Save to disk]
  • Re-refined 5id6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5ID6 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 5ID6
  • 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: [5id6_G] [5id6_A] [5id6]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5ID6
  • Community annotation for 5ID6 at PDBWiki (http://pdbwiki.org)

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