Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 12.24 kDa 
• Atom Count: 857 
• Residue Count: 105 
• Unique protein chains: 1

2LVS

NMR solution structure of a CRISPR repeat binding protein

• DOI: 10.2210/pdb2LVS/pdb
• BMRB: 18589

• Classification: DNA BINDING PROTEIN
• Organism(s): Hyperthermus butylicus DSM 5456
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2012-07-11 Released: 2013-01-23 
• Deposition Author(s): Kenchappa, C.S., Heidarsson, P.O., Garrett, R.A., Poulsen, F.M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Solution properties of the archaeal CRISPR DNA repeat-binding homeodomain protein Cbp2.

Kenchappa, C.S., Heidarsson, P.O., Kragelund, B.B., Garrett, R.A., Poulsen, F.M.

(2013) Nucleic Acids Res 41: 3424-3435

• PubMed: 23325851 
• DOI: 10.1093/nar/gks1465
• Primary Citation of Related Structures:  
  2LVS


• PubMed Abstract: 
  

Clustered regularly interspaced short palindromic repeats (CRISPR) form the basis of diverse adaptive immune systems directed primarily against invading genetic elements of archaea and bacteria. Cbp1 of the crenarchaeal thermoacidophilic order Sulfolobales, carrying three imperfect repeats, binds specifically to CRISPR DNA repeats and has been implicated in facilitating production of long transcripts from CRISPR loci. Here, a second related class of CRISPR DNA repeat-binding protein, denoted Cbp2, is characterized that contains two imperfect repeats and is found amongst members of the crenarchaeal thermoneutrophilic order Desulfurococcales. DNA repeat-binding properties of the Hyperthermus butylicus protein Cbp2Hb were characterized and its three-dimensional structure was determined by NMR spectroscopy. The two repeats generate helix-turn-helix structures separated by a basic linker that is implicated in facilitating high affinity DNA binding of Cbp2 by tethering the two domains. Structural studies on mutant proteins provide support for Cys(7) and Cys(28) enhancing high thermal stability of Cbp2Hb through disulphide bridge formation. Consistent with their proposed CRISPR transcriptional regulatory role, Cbp2Hb and, by inference, other Cbp1 and Cbp2 proteins are closely related in structure to homeodomain proteins with linked helix-turn-helix (HTH) domains, in particular the paired domain Pax and Myb family proteins that are involved in eukaryal transcriptional regulation.

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Organizational Affiliation: 

Archaea Centre, Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, DK-2200 Copenhagen, Denmark.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative uncharacterized protein	A	105	Hyperthermus butylicus DSM 5456	Mutation(s): 3  Gene Names: Hbut_0986
Find proteins for A2BLH2 (Hyperthermus butylicus (strain DSM 5456 / JCM 9403 / PLM1-5)) Explore A2BLH2  Go to UniProtKB:  A2BLH2

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2LVS Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-07-11 
• Released Date: 2013-01-23 
Deposition Author(s): Kenchappa, C.S., Heidarsson, P.O., Garrett, R.A., Poulsen, F.M.

Revision History 

• Version 1.0: 2013-01-23
  Type: Initial release
  
• Version 1.1: 2019-12-18
  Changes: Data collection, Database references