4H79

Crystal structure of CasB from Thermobifida fusca


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.148 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Nucleic acid binding surface and dimer interface revealed by CRISPR-associated CasB protein structures.

Nam, K.H.Huang, Q.Ke, A.

(2012) Febs Lett. 586: 3956-3961

  • DOI: 10.1016/j.febslet.2012.09.041
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The CRISPR system is an adaptive RNA-based microbial immune system against invasive genetic elements. CasB is an essential protein component in Type I-E Cascade. Here, we characterize CasB proteins from three different organisms as non-specific nucle ...

    The CRISPR system is an adaptive RNA-based microbial immune system against invasive genetic elements. CasB is an essential protein component in Type I-E Cascade. Here, we characterize CasB proteins from three different organisms as non-specific nucleic acid binding proteins. The Thermobifida fusca CasB crystal structure reveals conserved positive surface charges, which we show are important for its nucleic acid binding function. EM docking reveals that CasB dimerization aligns individual nucleic acid binding surfaces into a curved, elongated binding surface inside Type I-E Cascade, consistent with the putative functions of CasB in ds-DNA recruitment and crRNA-DNA duplex formation steps.


    Organizational Affiliation

    Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated protein, Cse2 family
A
216Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PI5 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PI5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.148 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 86.749α = 90.00
b = 86.749β = 90.00
c = 70.016γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data collection
PDB_EXTRACTdata extraction
MOLREPphasing
HKL-2000data scaling
REFMACrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-09-20 
  • Released Date: 2012-10-03 
  • Deposition Author(s): Ke, A., Nam, K.H.

Revision History 

  • Version 1.0: 2012-10-03
    Type: Initial release
  • Version 1.1: 2012-11-28
    Type: Database references