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Protein

DEAD-box ATP-dependent RNA helicase CshB

Gene

cshB

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

DEAD-box RNA helicase that plays a role in 70S ribosome assembly. May work in conjunction with the cold shock proteins to ensure proper initiation of transcription at low and optimal temperatures.2 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi48 – 558ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

  • response to cold Source: UniProtKB
  • ribosome biogenesis Source: UniProtKB-KW
  • RNA catabolic process Source: UniProtKB-HAMAP
  • RNA secondary structure unwinding Source: GO_Central
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Ribosome biogenesis, Stress response

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciBSUB:BSU25140-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DEAD-box ATP-dependent RNA helicase CshBUniRule annotation (EC:3.6.4.13UniRule annotation)
Gene namesi
Name:cshBUniRule annotation
Synonyms:yqfR
Ordered Locus Names:BSU25140
OrganismiBacillus subtilis (strain 168)
Taxonomic identifieri224308 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
Proteomesi
  • UP000001570 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

  • bacterial nucleoid Source: UniProtKB
  • cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

No difference in growth at 37 or 15 degrees Celsius (PubMed:16352840), decreased growth at 16 degrees Celsius (PubMed:23175651). The presence of CshA or CshB is essential for viability; in a cshA disruption mutant further depletion of cshB stops growth after 1 cell duplication (PubMed:16352840). Others show a quadruple disruption of all RNA helicases (cshA, cshB, deaD, yfmL) was not lethal at 37 degrees Celsius, although both 50S and 70S ribosomes are decreased, but growth stops at 16 degrees (PubMed:23175651). A double cshB-cspB disruption mutant cannot be made. A double cshB-cspD mutant grows slowly at 15 degrees Celsius (PubMed:16352840). Decreased amounts of 70S ribosomes (PubMed:23175651).2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 438438DEAD-box ATP-dependent RNA helicase CshBPRO_0000055111Add
BLAST

Proteomic databases

PaxDbiP54475.

Expressioni

Inductioni

Induced by cold shock (PubMed:12399512). In rich medium highest expression in logarithmic growth, expression decreases and then disappears in stationary phase (at protein level) (PubMed:20572937, PubMed:23175651). Protein level not increased at 16 degrees Celsius. Not detected in minimal medium (at protein level) (PubMed:20572937).4 Publications

Interactioni

Subunit structurei

Interacts with CspB when cells are transcriptionally active. May interact with RNA helicases CshA and DbpA (DeaD), may be a component of a possible RNA degradosome complex composed of rny, rnja, rnjb, pnp, pfkA and eno (although rnjA and rnjB's presence is unclear). Specifically interacts with pnp and rny (PubMed:20572937).2 Publications

Protein-protein interaction databases

IntActiP54475. 1 interaction.
STRINGi224308.Bsubs1_010100013756.

Structurei

3D structure databases

ProteinModelPortaliP54475.
SMRiP54475. Positions 3-369.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini35 – 208174Helicase ATP-bindingUniRule annotationAdd
BLAST
Domaini235 – 385151Helicase C-terminalUniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi4 – 3229Q motifAdd
BLAST
Motifi156 – 1594DEAD box

Sequence similaritiesi

Belongs to the DEAD box helicase family.Curated
Contains 1 helicase ATP-binding domain.UniRule annotation
Contains 1 helicase C-terminal domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0513. LUCA.
HOGENOMiHOG000268806.
InParanoidiP54475.
KOiK18692.
OMAiMTIYELT.
OrthoDBiEOG6GBMBM.
PhylomeDBiP54475.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
HAMAPiMF_01494. DEAD_helicase_CshB.
InterProiIPR030881. CshB.
IPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P54475-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKETKFELYE LKPFIIDAVH RLGFYEPTDI QKRLIPAVLK KESVIGQSQT
60 70 80 90 100
GTGKTHAYLL PLLNKIDPAK DVVQVVITAP TRELANQIYQ EALKITQGEE
110 120 130 140 150
GSQIRSKCFI GGTDKQKSID KLKIQPHLVV GTPGRIADLI KEQALSVHKA
160 170 180 190 200
ESLVIDEADL MLDMGFLADV DYIGSRMPED LQMLVFSATI PEKLKPFLKK
210 220 230 240 250
YMENPKYAHV EPKQVTAAKI EHILIPSKHR DKDKLLFDIM SHLNPYLGIV
260 270 280 290 300
FANTKNTADH IAQYLTGKGM KIGLLHGGLT PRERKKVMKQ INDLEFTYII
310 320 330 340 350
ATDLAARGID IKGVSHVINY ELPDDLDFYV HRVGRTARAG SSGQAMTIYE
360 370 380 390 400
LTDEDALVRL EKMGIEFEYL ELEKGEWKKG DDRQRRKKRK KTPNEADEIA
410 420 430
HRLVKKPKKV KPGYKKKMSY EMEKIKKKQR RNQSKKRK
Length:438
Mass (Da):50,027
Last modified:October 1, 1996 - v1
Checksum:iB6D425EF6D433789
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D84432 Genomic DNA. Translation: BAA12495.1.
AL009126 Genomic DNA. Translation: CAB14444.1.
PIRiD69954.
RefSeqiNP_390393.1. NC_000964.3.
WP_004399101.1. NZ_JNCM01000036.1.

Genome annotation databases

EnsemblBacteriaiCAB14444; CAB14444; BSU25140.
GeneIDi937908.
KEGGibsu:BSU25140.
PATRICi18976864. VBIBacSub10457_2621.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D84432 Genomic DNA. Translation: BAA12495.1.
AL009126 Genomic DNA. Translation: CAB14444.1.
PIRiD69954.
RefSeqiNP_390393.1. NC_000964.3.
WP_004399101.1. NZ_JNCM01000036.1.

3D structure databases

ProteinModelPortaliP54475.
SMRiP54475. Positions 3-369.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP54475. 1 interaction.
STRINGi224308.Bsubs1_010100013756.

Proteomic databases

PaxDbiP54475.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB14444; CAB14444; BSU25140.
GeneIDi937908.
KEGGibsu:BSU25140.
PATRICi18976864. VBIBacSub10457_2621.

Phylogenomic databases

eggNOGiCOG0513. LUCA.
HOGENOMiHOG000268806.
InParanoidiP54475.
KOiK18692.
OMAiMTIYELT.
OrthoDBiEOG6GBMBM.
PhylomeDBiP54475.

Enzyme and pathway databases

BioCyciBSUB:BSU25140-MONOMER.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
HAMAPiMF_01494. DEAD_helicase_CshB.
InterProiIPR030881. CshB.
IPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Systematic sequencing of the 283 kb 210 degrees-232 degrees region of the Bacillus subtilis genome containing the skin element and many sporulation genes."
    Mizuno M., Masuda S., Takemaru K., Hosono S., Sato T., Takeuchi M., Kobayashi Y.
    Microbiology 142:3103-3111(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: 168 / JH642.
  2. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
    Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
    , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
    Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 168.
  3. "Genomewide transcriptional analysis of the cold shock response in Bacillus subtilis."
    Beckering C.L., Steil L., Weber M.H.W., Voelker U., Marahiel M.A.
    J. Bacteriol. 184:6395-6402(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION BY COLD SHOCK.
    Strain: 168 / JH642.
  4. "Cold-induced putative DEAD box RNA helicases CshA and CshB are essential for cold adaptation and interact with cold shock protein B in Bacillus subtilis."
    Hunger K., Beckering C.L., Wiegeshoff F., Graumann P.L., Marahiel M.A.
    J. Bacteriol. 188:240-248(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH CSPB, INDUCTION, DISRUPTION PHENOTYPE.
    Strain: 168 / JH642.
  5. "The RNA degradosome in Bacillus subtilis: identification of CshA as the major RNA helicase in the multiprotein complex."
    Lehnik-Habrink M., Pfortner H., Rempeters L., Pietack N., Herzberg C., Stulke J.
    Mol. Microbiol. 77:958-971(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH PNP, SUBUNIT, SUBCELLULAR LOCATION, INDUCTION.
    Strain: 168.
  6. "DEAD-box RNA helicases in Bacillus subtilis have multiple functions and act independently from each other."
    Lehnik-Habrink M., Rempeters L., Kovacs A.T., Wrede C., Baierlein C., Krebber H., Kuipers O.P., Stulke J.
    J. Bacteriol. 195:534-544(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION, DISRUPTION PHENOTYPE.
    Strain: 168.

Entry informationi

Entry nameiCSHB_BACSU
AccessioniPrimary (citable) accession number: P54475
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: February 17, 2016
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.