5H9F Immune System Rna date Dec 28, 2015
title Crystal Structure Of E. Coli Cascade Bound To A Pam-Containi Target At 2.45 Angstrom Resolution.
authors R.P.Hayes, Y.Xiao, F.Ding, P.B.G.Van Erp, K.Rajashankar, S.Bailey B.Wiedenheft, A.Ke
compound source
Molecule: Crispr System Cascade Subunit Casa
Chain: A
Synonym: Crispr Type I-Eecoli-Associated Protein Casacse1 Associated Protein Casacse1;
Engineered: Yes
Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Casa, Cse1, Ygcl, B2760, Jw2730
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Crispr System Cascade Subunit Casb
Chain: B, C
Engineered: Yes

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Casb, Cse2, Ygck, B2759, Jw2729
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Crispr System Cascade Subunit Casc
Chain: D, E, F, G, H, I
Engineered: Yes

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Casc, Cas4, Cse4, Ygcj, B2758, Jw2728
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Crispr System Cascade Subunit Casd
Chain: J
Engineered: Yes

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Casd, Cas5, Ygci, B2757, Jw5844
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Crrna (61-Mer)
Chain: L
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (28-Mer) Non-Target
Chain: M
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Dna (50-Mer) Target
Chain: N
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Crispr System Cascade Subunit Case
Chain: K
Synonym: Case Endornase,Crrna Endonuclease
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Case, Cas6e, Ygch, B2756, Jw2726
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 2 21 21
R_factor 0.206 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.979 150.059 400.546 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.45 Å
ligand 23G, ZN enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B, C


F, E, H, D, I, G


J


K


Primary referenceStructural basis for promiscuous PAM recognition in type I-E Cascade from E. coli., Hayes RP, Xiao Y, Ding F, van Erp PB, Rajashankar K, Bailey S, Wiedenheft B, Ke A, Nature. 2016 Feb 25;530(7591):499-503. doi: 10.1038/nature16995. Epub 2016 Feb, 10. PMID:26863189
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1195 Kb) [Save to disk]
  • Biological Unit Coordinates (5h9f.pdb1.gz) 1175 Kb
  • LPC: Ligand-Protein Contacts for 5H9F
  • CSU: Contacts of Structural Units for 5H9F
  • Structure Factors (1279 Kb)
  • Retrieve 5H9F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5H9F from S2C, [Save to disk]
  • Re-refined 5h9f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5H9F 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 5H9F
  • 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 5h9f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5h9f_M] [5h9f_J] [5h9f_C] [5h9f_B] [5h9f_G] [5h9f_K] [5h9f_F] [5h9f_L] [5h9f_D] [5h9f_A] [5h9f_H] [5h9f_N] [5h9f] [5h9f_I] [5h9f_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5H9F: [CRISPR_assoc ] by SMART
  • Other resources with information on 5H9F
  • Community annotation for 5H9F at PDBWiki (http://pdbwiki.org)

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