DeaD

• Description: DEAD-box RNA helicase, important for adaptation to low temperatures
  
  

Gene name	deaD
Synonyms	yxiN
Essential	no
Product	DEAD-box RNA helicase
Function	RNA helicase
Gene expression levels in SubtiExpress: deaD
Interactions involving this protein in SubtInteract: DeaD
MW, pI	53 kDa, 7.706
Gene length, protein length	1437 bp, 479 aa
Immediate neighbours	yxiO, yxiM
Sequences	Protein DNA DNA_with_flanks
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed

Categories containing this gene/protein

DEAD-box RNA helicases, translation

The gene

Basic information

• Locus tag: BSU39110

Database entries

• BsubCyc: BSU39110

• DBTBS entry: [1]

• SubtiList entry: [2]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity:
  • RNA helicase
  • required for ribosome assembly PubMed

• Protein family: DEAD-box RNA helicase

• Paralogous protein(s): CshA, CshB, YfmL

Extended information on the protein

• Kinetic information:

• Domains:
  • Helicase domain 1: AS 1-203
  • Linker region: AS 204-212
  • Helicase domain 2: AS 207-368
  • RNA-binding domain: AS 404-479

• Modification:

• Cofactor(s):

• Effectors of protein activity:

• Interactions:
  • DeaD-CshA PubMed
  • DeaD-CshB PubMed
  • DeaD-23S rRNA PubMed

• Localization:

Database entries

• BsubCyc: BSU39110

• Structure: 2G0C (RNA-binding domain, AA 404-479), 2HJV (second domain, AA 207-368); 3MOJ (RNA binding domain complexed with a fragment of 23S ribosomal RNA) PubMed

• UniProt: P42305

• KEGG entry: [3]

• E.C. number:

Expression and regulation

• Operon: yxiM-deaD PubMed

• Expression browser: deaD PubMed

• Sigma factor:

• Regulation:
  • expression declines in the stationary phase PubMed

• Regulatory mechanism:

• Additional information:
  • number of protein molecules per cell (minimal medium with glucose and ammonium): 96 PubMed

Biological materials

• Mutant: GP1052 (tet), available in the Stülke lab

• Expression vector:
  • for expression/ purification from B. subtilis with C-terminal Strep-tag, for SPINE, expression from the native chromomsomal site: GP1065 (spc), available in Jörg Stülke's lab

• lacZ fusion:

• GFP fusion:

• two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jörg Stülke's lab

• FLAG-tag construct:
  • GP1068 (spc, based on pGP1331), available in Jörg Stülke's lab

• Antibody:

Labs working on this gene/protein

Dagmar Klostermeier, Biozentrum Basel, Switzerland homepage