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ynbA [2017-10-19 17:51:33]
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ynbA [2017-10-19 17:51:33]

GTP-binding protein, ribosome-splitting factor, rescues translationally arrested ribosomes
locus
BSU17430
pI
9.24
mw
37.51 kDa
protein length
334 aa Sequence Blast
gene length
1002 bp Sequence Blast
function
rescuing of translationally arrested ribosomes
product
GTP-binding protein, ribosome-splitting factor
essential
no
synonyms
Outlinks
KEGGBsubCycSubtiListUniProtExpression Browser

Genomic Context

      

categories

  • [category|SW 3|Information processing] → [category|SW 3.5|Targets of second messengers] → [category|SW 3.5.3|Targets of (p)ppGpp]
  • [category|SW 6|Groups of genes] → [category|SW 6.3|GTP-binding proteins]

    • Gene

    Coordinates
    1,875,304 → 1,876,566

    The protein

    Catalyzed reaction/ biological activity

  • binds and hydrolyzes GTP and readily exchanges GDP for GTP
  • rescuing of translationally arrested ribosomes [Pubmed|26458047]

    • Protein family

  • GTP1/OBG family (according to Swiss-Prot) Era/Obg family

    • Paralogous protein(s)

  • [protein|CB68B3393CA7862C45C624AF7B1ADD188243A01F|Era], [protein|84E7D672DB40B114DC4D96A4D8834958B47401A7|Obg], [protein|B2270316642C66BC2DA86EBDCD1BF6A33CC6A1DC|YphC], [protein|DF1A043F3D9817D9479B8C707F4ACEEF2BF2862C|YsxC], [protein|54CD247926F7FABE4ACE85EB7021B62500B47260|RbgA], [protein|959C0ED7B9DA50F0EADCF1565405B878D36DA206|YqeH], [protein|66A6EC4F6CB91EE741BB9D7646913FF3EE602BD7|ThdF], [protein|C0F5FAD6DF89DA9E0FFC8F888D7CED6AA42D9C73|YyaF], [protein|9F6B78C1932FB56F7F71430DB16BC862A312407B|YnbA]

    • Effectors of protein activity

  • binds ppGpp [Pubmed|26951678], ppGpp may inhibit activity [Pubmed|26951678]

    • Structure

  • [PDB|5ADY] (the protein from ''E. coli'' in complex with the [SW|ribosome], 41% identity) [Pubmed|26458047]

    • Expression and Regulation

    Operons

    genes
    [gene|9F6B78C1932FB56F7F71430DB16BC862A312407B|ynbA]-[gene|14EFA3BF4E5DD5368EF02B0733300CEF7A4E0DC7|ynbB]-[gene|641C4BDD9702804642E1753A9C779E80FABB3919|glnR]-[gene|68F4E792B99F86AE9E8F06D2200E128937331F5D|glnA]
    description
    [Pubmed|22383849]

    regulation

  • the mRNA is processed between [gene|641C4BDD9702804642E1753A9C779E80FABB3919|glnR] and [gene|68F4E792B99F86AE9E8F06D2200E128937331F5D|glnA] by [protein|872CCB5A49C9000BD95E4B0472556D5F60F7D7A4|RNase Y], this requires the [protein|EE52DFA35B935E551871D079A9BE877DB2001A3B|YmcA]-[protein|6C9A092F38739A3759793EF8B496569CD02C2E3F|YlbF]-[protein|EBD15C174A03B7FCDFFE4C5DB5D86E93F1B9CAC4|YaaT] complex [Pubmed|29794222]
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    Biological materials

    Mutant

  • MGNA-A020 (ynbA::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/20 NBRP B. subtilis, Japan]
  • BKE17430 (Δ[gene|9F6B78C1932FB56F7F71430DB16BC862A312407B|ynbA]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE17430 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CAAATGGATGTTCCTTTCTT, downstream forward: _UP4_ATGTAGGAAGGAAATATAAA
  • BKK17430 (Δ[gene|9F6B78C1932FB56F7F71430DB16BC862A312407B|ynbA]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK17430 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CAAATGGATGTTCCTTTCTT, downstream forward: _UP4_ATGTAGGAAGGAAATATAAA

    • Labs working on this gene/protein

  • [SW|Naotake Ogasawara], Nara, Japan

    • References

    Reviews

  • 21885683

    • Original publications

  • 12427945,26458047,26951678,26951678