SubtiBank SubtiBank
Version comparison:

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

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

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

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]