Tue Dec 13 2016 11:16:37 GMT+0100 (CET)2025-05-11 09:05:01
description
DEAD-box RNA helicase, important for adaptation to low temperatures
DEAD-box RNA helicase
locus
BSU39110
BSU_39110
ec
outlinks
bsu
BSU39110
BSU_39110
aminos
MSHFKNYQISHDILRALEGLGYTEPTKVQQSVIPAALERKDLVVKSQTGSGKTASFGIPLCELANWDENKPQALILTPTRELAVQVKEDITNIGRFKRIKATAVFGKSSFDKQKAELKQKSHIVVGTPGRVLDHIEKGTLPLDRLSYLVIDEADEMLNMGFIEQVEAIIKHLPTERTTMLFSATLPQDIEKLSRQYMQNPEHIEVKAAGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIEAPSQEEVARKKPEFLAKLNDRPESKKDKSEELNKDIMKLYFNGGKKKKIRAVDFVGTIAKIDGVSADDIGIITIMDNASYVEILNGKGPHVLKVMKNTTVKGKQLKVNKANK
[SW|Categories] containing this gene/protein
[SW|DEAD-box RNA helicases], [SW|translation]
Gene
Coordinates on the chromosome (coding sequence)
4,015,987 -> 4,017,426
The protein
Catalyzed reaction/ biological activity
RNA helicase
required for [SW|ribosome] assembly [Pubmed|23175651]
RNA helicase
ATP + H2O --> ADP + H+ + phosphate (according to UniProt)
The protein
Protein family
[[DEAD-box RNA helicases|DEAD-box RNA helicase]]
[SW|helicase family] (according to UniProt)
[SW|DEAD-box RNA helicases] (according to UniProt)
The protein
Paralogous protein(s)
[[protein|CshA]], [[protein|CshB]], [[protein|YfmL]]
[[this]]
The protein
[SW|Domains]
Helicase domain 1: AS 1-203
Linker region: AS 204-212
Helicase domain 2: AS 207-368
RNA-binding domain: AS 404-479
[SW|Helicase ATP-binding domain] (aa 33-203) (according to UniProt)
[SW|Helicase C-terminal domain] (aa 214-374) (according to UniProt)
The protein
Structure
[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]
[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]
The protein
[SW|Interactions]
[[protein|DeaD]]-[[protein|CshA]] [Pubmed|20572937]
[[protein|DeaD]]-[[protein|CshB]] [Pubmed|20572937]
[[protein|DeaD]]-[SW|23S rRNA] [Pubmed|20673833]
Expression and Regulation
Operon
''[[protein|yxiM]]-[[protein|deaD]]'' [Pubmed|10746760]
Expression and Regulation
Regulation
expression declines in the stationary phase [Pubmed|23175651]
Biological materials
Mutant
GP1052 (tet), available in the [SW|Stülke] lab
MGNA-B720 (deaD::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1719 NBRP B. subtilis, Japan]
GP1052 (Δ[[gene|deaD]]::tet), available in [SW|Jörg Stülke]'s lab
BKE39110 (Δ[[gene|deaD]]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE39110 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGTATAAACTCCTGTCTC, downstream forward: _UP4_AAATGATGAATGACCTGCTC
BKK39110 (Δ[[gene|deaD]]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK39110 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATGTATAAACTCCTGTCTC, downstream forward: _UP4_AAATGATGAATGACCTGCTC
Biological materials
Expression vector
for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [SW|SPINE], expression from the native chromomsomal site: GP1065 (spc), available in [SW|Jörg Stülke]'s lab
Biological materials
two-hybrid system
B. pertussis adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Jörg Stülke]'s lab
B. pertussis adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Jörg Stülke]'s lab, [pubmed|20572937]
Labs working on this gene/protein
[SW|Dagmar Klostermeier], Biozentrum Basel, Switzerland [http://www.biozentrum.unibas.ch/klostermeier/index.html homepage]
References
proteinLength
479
geneLength
1440
Gene
Coordinates
4,015,987 → 4,017,426
Expression and Regulation
Operons
[[this]]
Expression and Regulation
Other regulations
[[this]]
Biological materials
Expression vectors
for expression/ purification from ''B. subtilis'' with C-terminal Strep-tag, for [SW|SPINE], expression from the native chromomsomal site: GP1065 (spc), available in [SW|Jörg Stülke]'s lab
labs
[SW|Dagmar Klostermeier], Biozentrum Basel, Switzerland [http://www.biozentrum.unibas.ch/klostermeier/index.html homepage]