deaD

168

DEAD-box RNA helicase

locus: BSU_39110

Molecular weight: 53.85 kDa

pI: 7.71

Protein length: 479 aa

Gene length: 1440 bp

function: RNA helicase

product: DEAD-box RNA helicase

essential: no

synonyms: deaD, yxiN

List of homologs in different organisms, belongs to COG0513 (Galperin et al., 2021)

Gene

Coordinates: 4,015,987 → 4,017,426

Advertisement

The protein

Catalyzed reaction/ biological activity

• RNA helicase
• ATP + H₂O --> ADP + H⁺ + phosphate (according to UniProt)

Protein family

• [wiki|helicase family] (according to UniProt)
• [wiki|DEAD-box RNA helicases] (according to UniProt)

[wiki|Domains]

• [wiki|Helicase ATP-binding domain] (aa 33-203) (according to UniProt)
• [wiki|Helicase C-terminal domain] (aa 214-374) (according to UniProt)

Structure

• [PDB|5IVL] (from Geobacillus stearothermophilus, corresponds to aa 1 ... 373, 44% identity) [pubmed|28238534]
• [PDB|2G0C] (RNA-binding domain, AA 404-479)
• [PDB|2HJV] (second domain, AA 207-368)
• [PDB|3MOJ] (RNA binding domain complexed with a fragment of 23S ribosomal RNA) [Pubmed|20673833]
• [AF|P42305]

Paralogous protein(s)

• [protein|0362D937D985846AEE4D0DEA57B62F915E8D35E5|yfmL], [protein|C83BD80DE0FD187D07B914F64696438ED5130107|cshB], [protein|E169F9711635457EA65FA71CCE9D7FF29DD8DF02|cshA]

Expression and Regulation

Operons

• genes: [gene|D2790591E8C3B86BF91F6E1B6DADBA306D5EF758|yxiM]-[gene|EACD0C84AA3CE41EF05EAA3D25AA1153293EB562|deaD]

  description: [Pubmed|10746760]

  regulation

  • expression declines in the stationary phase [Pubmed|23175651]

Biological materials

Mutant

• MGNA-B720 (deaD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1719 NBRP B. subtilis, Japan]
• GP1052 (Δ[gene|EACD0C84AA3CE41EF05EAA3D25AA1153293EB562|deaD]::tet), available in [wiki|Jörg Stülke]'s lab
• BKE39110 (Δ[gene|EACD0C84AA3CE41EF05EAA3D25AA1153293EB562|deaD]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE39110 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGTATAAACTCCTGTCTC,  downstream forward: _UP4_AAATGATGAATGACCTGCTC
• BKK39110 (Δ[gene|EACD0C84AA3CE41EF05EAA3D25AA1153293EB562|deaD]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK39110 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGTATAAACTCCTGTCTC,  downstream forward: _UP4_AAATGATGAATGACCTGCTC

Expression vectors

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

two-hybrid system

• B. pertussis adenylate cyclase-based bacterial two hybrid system ([wiki|BACTH]), available in [wiki|Jörg Stülke]'s lab, [pubmed|20572937]

FLAG-tag construct

• GP1068 (spc, based on [wiki|pGP1331]), available in [wiki|Jörg Stülke]'s lab

labs

• [wiki|Dagmar Klostermeier], Biozentrum Basel, Switzerland [http://www.biozentrum.unibas.ch/klostermeier/index.html homepage]

References

Reviews

• 38430409

Original Publications

• 17142894,16118224,17229151,16611943,19839642,19474341,18184816,17951299,12460566,10481020,20572937,20673833,20691700,23175651,23625962,25907111,25123660,28238534,30337909