rbgA [2019-10-31 12:27:47]

assembly of the 50S subunit of the [SW|ribosome]

locus: BSU_16050

pI: 9.53

mw: 31.83 kDa

protein length: 282 aa

gene length: 849 bp

function: [category|SW 3.3.1.6|Ribosome assembly]

product: GTPase

essential: yes

synonyms: ylqF

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.3|Protein synthesis, modification and degradation] → [category|SW 3.3.1|Translation] → [category|SW 3.3.1.6|Ribosome assembly]
• [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 6.1|Essential genes]
• [category|SW 6|Groups of genes] → [category|SW 6.3|GTP-binding proteins]

Gene

Coordinates: 1,676,532 1,677,380

Phenotypes of a mutant

• essential [Pubmed|12682299]
• depletion confers a slow growth phenotype, and induces an abnormality of the ''in vivo'' [SW|ribosome] profile, with an increased level of 45S precursors and a decreased level of 70S ribosomes [Pubmed|24335279,23700310]
• premature 45S particles accumulated in RbgA-depleted cells lack several proteins, including [protein|C5CAED1256F082E722EBA0A72647AA043B5681DB|L16], [protein|4626C659D6F1A81CCC94030F1CBAF7FEC3DE19CA|L27], [protein|A58851E0B5C4DE4D6F3C16FF8C009001E393C3B8|L28], [protein|D73FC9CAD929919050837824B4794F9FC9E83052|L33], [protein|7F22743ED669DBCD4089EA2F86B8FFD924F8C2B9|L35] and [protein|F69B475C014087C6DEBE2F50F91862A623D21D1E|L36] [Pubmed|24335279,23700310]

The protein

Catalyzed reaction/ biological activity

• proper positioning of [protein|20485A785D3AF82889F2018D3EA5B5FA33E64E95|L6] in the large subunit of the [SW|ribosome] prior to incorporation of [protein|C5CAED1256F082E722EBA0A72647AA043B5681DB|L16] [Pubmed|25330043]
• Binds and hydrolyzes GTP and readily exchanges GDP for GTP
• stabilizes rRNA helices in the A and P functional sites [pubmed|31665744]

Protein family

• TRAFAC class YlqF/YawG GTPase family (together with [protein|519D4694B2895EE6F0D38D918F52F27734506848|CpgA] and [protein|959C0ED7B9DA50F0EADCF1565405B878D36DA206|YqeH], according to UniProt)

Paralogous protein(s)

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

[SW|Domains]

• RNA-binding domain at the C-terminus [Pubmed|23325847]
• CP-type G domain (aa 14-178) (according to UniProt)

Effectors of protein activity

• GTPase activity requires binding of [protein|C5CAED1256F082E722EBA0A72647AA043B5681DB|L16] to the 50S subunit of the [SW|ribosome] [Pubmed|24335279]
• binds ppGpp [Pubmed|26951678], ppGpp inhibits activity [Pubmed|30366986,26951678]

Structure

• [PDB|1PUJ]

[SW|Localization]

• cytoplasm (according to Swiss-Prot)

Expression and Regulation

Operons

• genes: [gene|54CD247926F7FABE4ACE85EB7021B62500B47260|rbgA]-[gene|D5275ECDC2A70FBAC2CA5980F04B272C3328FC90|rnhB]-[gene|0D4A4A1B2FD9D0698D0A65010A8ABC84DA7386A2|ylqG]-[gene|3F271D9FFE4F30D845319CD71662695AA592EC8F|ylqH]
  description: [Pubmed|22383849]

Biological materials

Mutant

• MGNA-B141 (ylqF::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1140 NBRP B. subtilis, Japan]

labs

• [SW|Naotake Ogasawara], Nara, Japan

References

Reviews

• 19575570,21885683

Original publications

• 12427945,16390447,16997968,23325847,22267738,23700310,24335279,25330043,26951678,30366986,31665744