scr

168

4.5 S RNA, causes RNA-driven elongation arrest by interaction with the 23S rRNA

Locus: BSU_misc_RNA_2

Function: presecretory protein translocation

Product: small cytoplasmic RNA (scRNA, 4.5S RNA)

Essential: yes

Synonyms: scr

Genomic Context

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Gene

Coordinates: 26,533 → 26,635

Phenotypes of a mutant

• the gene is essential PubMed

RNA

Structure

• 4UE4 (PDB) (complex Ffh-Scr RNA) PubMed

The protein

Structure

• 4UE4 (PDB) (complex Ffh-Scr RNA) PubMed

Expression and Regulation

Operons

• Genes: yaaJ-scr

  Description: null

  Sigma factors

  • SigA: sigma factor, (both promoters), in sigA regulon

Additional information

• the mature 5' end of RNA is generated by RNase III-mediated cleavage at 38 nts PubMed
• the mature 3' end of RNA is generated by RNase Y-mediated cleavage at 320 nts, and further trimming to 308 nts PubMed

Labs working on this gene/protein

• David Bechhofer, Mount Sinai School, New York, USA

References

Reviews

Tsirigotaki A, De Geyter J, Šoštaric N, Economou A, Karamanou S Protein export through the bacterial Sec pathway. Nature reviews. Microbiology. 2017 Jan; 15(1):21-36. doi:10.1038/nrmicro.2016.161. PMID:27890920
Kang Z, Yang S, Du G, Chen J Molecular engineering of secretory machinery components for high-level secretion of proteins in Bacillus species. Journal of industrial microbiology & biotechnology. 2014 Nov; 41(11):1599-607. doi:10.1007/s10295-014-1506-4. PMID:25212246

Original Publications

DiChiara JM, Liu B, Figaro S, Condon C, Bechhofer DH Mapping of internal monophosphate 5' ends of Bacillus subtilis messenger RNAs and ribosomal RNAs in wild-type and ribonuclease-mutant strains. Nucleic acids research. 2016 Apr 20; 44(7):3373-89. doi:10.1093/nar/gkw073. PMID:26883633
Beckert B, Kedrov A, Sohmen D, Kempf G, Wild K, Sinning I, Stahlberg H, Wilson DN, Beckmann R Translational arrest by a prokaryotic signal recognition particle is mediated by RNA interactions. Nature structural & molecular biology. 2015 Oct; 22(10):767-73. doi:10.1038/nsmb.3086. PMID:26344568
Gilet L, DiChiara JM, Figaro S, Bechhofer DH, Condon C Small stable RNA maturation and turnover in Bacillus subtilis. Molecular microbiology. 2015 Jan; 95(2):270-82. doi:10.1111/mmi.12863. PMID:25402410
Kempf G, Wild K, Sinning I Structure of the complete bacterial SRP Alu domain. Nucleic acids research. 2014 Oct 29; 42(19):12284-94. doi:10.1093/nar/gku883. PMID:25270875
Yao S, Blaustein JB, Bechhofer DH Processing of Bacillus subtilis small cytoplasmic RNA: evidence for an additional endonuclease cleavage site. Nucleic acids research. 2007; 35(13):4464-73. . PMID:17576666
Nakamura K, Yahagi S, Yamazaki T, Yamane K Bacillus subtilis histone-like protein, HBsu, is an integral component of a SRP-like particle that can bind the Alu domain of small cytoplasmic RNA. The Journal of biological chemistry. 1999 May 07; 274(19):13569-76. . PMID:10224127
Yamazaki T, Yahagi S, Nakamura K, Yamane K Depletion of Bacillus subtilis histone-like protein, HBsu, causes defective protein translocation and induces upregulation of small cytoplasmic RNA. Biochemical and biophysical research communications. 1999 Apr 29; 258(1):211-4. . PMID:10222262
Oguro A, Kakeshita H, Nakamura K, Yamane K, Wang W, Bechhofer DH Bacillus subtilis RNase III cleaves both 5'- and 3'-sites of the small cytoplasmic RNA precursor. The Journal of biological chemistry. 1998 Jul 31; 273(31):19542-7. . PMID:9677377
Takamatsu H, Bunai K, Horinaka T, Oguro A, Nakamura K, Watabe K, Yamane K Identification of a region required for binding to presecretory protein in Bacillus subtilis Ffh, a homologue of the 54-kDa subunit of mammalian signal recognition particle. European journal of biochemistry. 1997 Sep 01; 248(2):575-82. . PMID:9346318
Kurita K, Honda K, Suzuma S, Takamatsu H, Nakamura K, Yamane K Identification of a region of Bacillus subtilis Ffh, a homologue of mammalian SRP54 protein, that is essential for binding to small cytoplasmic RNA. The Journal of biological chemistry. 1996 May 31; 271(22):13140-6. . PMID:8662730
Shibata T, Nakamura Y, Nakamura K, Yamane K Depletion of small cytoplasmic RNA confers fusidic-acid resistance on Bacillus subtilis. Biochemical and biophysical research communications. 1995 May 16; 210(2):317-23. . PMID:7538759
Nishiguchi M, Honda K, Amikura R, Nakamura K, Yamane K Structural requirements of Bacillus subtilis small cytoplasmic RNA for cell growth, sporulation, and extracellular enzyme production. Journal of bacteriology. 1994 Jan; 176(1):157-65. . PMID:7506707
Struck JC, Hartmann RK, Toschka HY, Erdmann VA Transcription and processing of Bacillus subtilis small cytoplasmic RNA. Molecular & general genetics : MGG. 1989 Feb; 215(3):478-82. . PMID:2468993
Nakamura K, Minemura M, Nishiguchi M, Honda K, Nakamura A, Yamane K Conserved residues and secondary structure found in small cytoplasmic RNAs from thirteen Bacillus species. Nucleic acids research. 1992 Oct 11; 20(19):5227-8. . PMID:1383945
Nakamura K, Imai Y, Nakamura A, Yamane K Small cytoplasmic RNA of Bacillus subtilis: functional relationship with human signal recognition particle 7S RNA and Escherichia coli 4.5S RNA. Journal of bacteriology. 1992 Apr; 174(7):2185-92. . PMID:1372600