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Escherichia coli K-12 substr. MG1655 Polypeptide: ribosome-associated ATPase



Gene: rbbA Accession Numbers: EG12223 (EcoCyc), b3486, ECK3471

Synonyms: yhiG, yhiH

Regulation Summary Diagram: ?

Summary:
RbbA is associated with the 30S subunit of the ribosome and has ribosome-dependent ATPase activity [Kiel99, Kiel01]. Stimulation of protein synthesis by RbbA is dependent on ATP hydrolysis, and the ATPase activity is inhibited by hygromycin [Kiel01, Ganoza01]. The effect of hygromycin may be due to its ability to release RbbA from the ribosome [Ganoza01].

RbbA specifically interacts with EF-Tu and crosslinks to the 30S ribosomal subunit protein S1 [Kiel01]. The E-site base A937 of 16S rRNA in the intact 70S ribosome is protected by a truncated form of RbbA [Xu06f]. The truncated form of RbbA may be identical to the translation factor "Protein W" [Green85b, Ganoza85, Ganoza95, Ganoza96, Kiel99]. RbbA also interacts with the membrane protein YhjD and certain lipopolysaccharide transport components [Babu11b]. A genetic interaction screen discovered synthetic interactions with genes linked to membrane, protein synthesis and energy metabolism [Babu11b].

RbbA contains two ATP-binding domains in its N terminus [Kiel99]. The ATP-binding domains together with five predicted transmembrane helices led to the initial functional prediction as the ATP-binding component of an ABC transporter [Saurin99]. A truncated form of RbbA which does not contain the predicted transmembrane domains still stimulates protein synthesis and has ribosome-dependent ATPase activity [Xu06f].

rbbA yhjD double deletion mutant cells are elongated when grown at 15 or 32°C and show impaired translation fidelity. Both the single and double deletion mutants show increased sensitivity to certain antibiotics that target the ribosome and electron transport by NDH-1 and show impaired growth on glycerol [Babu11b].

RbbA: "ribosomal bound ATPase" [Kiel99]

Citations: [Kobayashi01a, Nishino01]

Locations: inner membrane

Map Position: [3,624,826 <- 3,627,561] (78.13 centisomes)
Length: 2736 bp / 911 aa

Molecular Weight of Polypeptide: 100.78 kD (from nucleotide sequence), 91 kD (experimental) [Kiel99 ]

Unification Links: ASAP:ABE-0011381 , DIP:DIP-12363N , EchoBASE:EB2136 , EcoGene:EG12223 , EcoliWiki:b3486 , ModBase:P37624 , OU-Microarray:b3486 , PortEco:rbbA , Pride:P37624 , Protein Model Portal:P37624 , RefSeq:YP_026225 , RegulonDB:EG12223 , SMR:P37624 , String:511145.b3486 , UniProt:P37624

Relationship Links: InterPro:IN-FAMILY:IPR000412 , InterPro:IN-FAMILY:IPR003439 , InterPro:IN-FAMILY:IPR003593 , InterPro:IN-FAMILY:IPR017871 , InterPro:IN-FAMILY:IPR027417 , Pfam:IN-FAMILY:PF00005 , Prosite:IN-FAMILY:PS00211 , Prosite:IN-FAMILY:PS50893 , Prosite:IN-FAMILY:PS51012 , Smart:IN-FAMILY:SM00382

In Paralogous Gene Group: 23 (75 members) , 199 (4 members)

GO Terms:

Biological Process: GO:0006200 - ATP catabolic process Inferred by computational analysis Inferred from experiment [Kiel01, Kiel99, GOA01]
GO:0045727 - positive regulation of translation Inferred from experiment [Kiel01]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11]
GO:0055085 - transmembrane transport Inferred by computational analysis [GOA01]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Babu11b]
GO:0016887 - ATPase activity Inferred from experiment Inferred by computational analysis [GOA01, Kiel99]
GO:0042623 - ATPase activity, coupled Inferred from experiment [Kiel01]
GO:0043024 - ribosomal small subunit binding Inferred from experiment [Babu11b, Kiel01]
GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11]
GO:0005524 - ATP binding Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0042626 - ATPase activity, coupled to transmembrane movement of substances Inferred by computational analysis [GOA01]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Babu11b]
GO:0022627 - cytosolic small ribosomal subunit Inferred from experiment [Babu11b]
GO:0060187 - cell pole Inferred from experiment [Babu11b]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: information transfer protein related translation

Essentiality data for rbbA knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Credits:
Last-Curated ? 13-Mar-2014 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Conserved-Region 13 -> 248
[UniProt09]
UniProt: ABC transporter 1;
Nucleotide-Phosphate-Binding-Region 45 -> 52
[UniProt10a]
UniProt: ATP 1; Non-Experimental Qualifier: by similarity;
Conserved-Region 277 -> 507
[UniProt09]
UniProt: ABC transporter 2;
Nucleotide-Phosphate-Binding-Region 309 -> 316
[UniProt10a]
UniProt: ATP 2; Non-Experimental Qualifier: by similarity;
Transmembrane-Region 563 -> 583
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Conserved-Region 683 -> 909
[UniProt09]
UniProt: ABC transmembrane type-2;
Transmembrane-Region 716 -> 736
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 769 -> 789
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 796 -> 816
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 824 -> 844
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 886 -> 906
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
Suzanne Paley on Thu Oct 21, 2004:
Position updated based on U00096.2 release of genome
2/26/1998 (pkarp) Merged genes EG12222/yhiG and EG12223/b3486


References

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Babu11b: Babu M, Aoki H, Chowdhury WQ, Gagarinova A, Graham C, Phanse S, Laliberte B, Sunba N, Jessulat M, Golshani A, Emili A, Greenblatt JF, Ganoza MC (2011). "Ribosome-dependent ATPase interacts with conserved membrane protein in Escherichia coli to modulate protein synthesis and oxidative phosphorylation." PLoS One 6(4);e18510. PMID: 21556145

Daley05: Daley DO, Rapp M, Granseth E, Melen K, Drew D, von Heijne G (2005). "Global topology analysis of the Escherichia coli inner membrane proteome." Science 308(5726);1321-3. PMID: 15919996

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Ganoza01: Ganoza MC, Kiel MC (2001). "A ribosomal ATPase is a target for hygromycin B inhibition on Escherichia coli ribosomes." Antimicrob Agents Chemother 45(10);2813-9. PMID: 11557474

Ganoza85: Ganoza MC, Cunningham C, Green RM (1985). "Isolation and point of action of a factor from Escherichia coli required to reconstruct translation." Proc Natl Acad Sci U S A 82(6);1648-52. PMID: 3885216

Ganoza95: Ganoza MC, Cunningham C, Green RM (1995). "A new factor from Escherichia coli affects translocation of mRNA." J Biol Chem 270(44);26377-81. PMID: 7592851

Ganoza96: Ganoza MC, Aoki H, Burkhardt N, Murphy BJ (1996). "The ribosome as affinity matrix': efficient purification scheme for translation factors." Biochimie 78(1);51-61. PMID: 8725011

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Green85b: Green RH, Glick BR, Ganoza MC (1985). "Requirements for in vitro reconstruction of protein synthesis." Biochem Biophys Res Commun 126(2);792-8. PMID: 3884000

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Kiel01: Kiel MC, Ganoza MC (2001). "Functional interactions of an Escherichia coli ribosomal ATPase." Eur J Biochem 268(2);278-86. PMID: 11168361

Kiel99: Kiel MC, Aoki H, Ganoza MC (1999). "Identification of a ribosomal ATPase in Escherichia coli cells." Biochimie 81(12);1097-108. PMID: 10607404

Kobayashi01a: Kobayashi N, Nishino K, Yamaguchi A (2001). "Novel macrolide-specific ABC-type efflux transporter in Escherichia coli." J Bacteriol 2001;183(19);5639-44. PMID: 11544226

Nishino01: Nishino K, Yamaguchi A (2001). "Analysis of a complete library of putative drug transporter genes in Escherichia coli." J Bacteriol 2001;183(20);5803-12. PMID: 11566977

Saurin99: Saurin W, Hofnung M, Dassa E (1999). "Getting in or out: early segregation between importers and exporters in the evolution of ATP-binding cassette (ABC) transporters." J Mol Evol 1999;48(1);22-41. PMID: 9873074

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

Xu06f: Xu J, Kiel MC, Golshani A, Chosay JG, Aoki H, Ganoza MC (2006). "Molecular localization of a ribosome-dependent ATPase on Escherichia coli ribosomes." Nucleic Acids Res 34(4);1158-65. PMID: 16495476


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Thu Nov 20, 2014, BIOCYC14A.