Pathway Tools
Intro Tutorial
discounted registration ends Sept 5, 2015
Pathway Tools
Intro Tutorial
discounted registration ends Sept 5, 2015
Pathway Tools
Intro Tutorial
discounted registration ends Sept 5, 2015
Pathway Tools
Intro Tutorial
discounted registration ends Sept 5, 2015
Pathway Tools
Intro Tutorial
discounted registration ends Sept 5, 2015

Escherichia coli K-12 substr. MG1655 Enzyme: S-adenosylmethionine:tRNA ribosyltransferase-isomerase

Gene: queA Accession Numbers: EG10812 (EcoCyc), b0405, ECK0399

Synonyms: tsaA

Regulation Summary Diagram: ?

Regulation summary diagram for queA

S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA) catalyzes addition of the 2,3-epoxy-4,5-dihydroxycyclopentane ring of epoxyqueuosine (oQ) to preQ1. This is the penultimate step in the formation of the queuosine (Q) anticodon loop modification in tRNA(Asp), tRNA(Asn), tRNA(His), and tRNA(Tyr) [Slany93].

The enzyme transfers the ribosyl moiety of SAM to preQ1 and isomerizes it to the epoxycyclopentane residue of oQ [Slany93, Slany94]. A chemical reaction mechanism has been proposed [Kinzie00]. Inhibition studies are consistent with a fully ordered sequential bi-ter kinetic mechanism in which preQ1-tRNA binds first followed by SAM, with product release in the order adenine, methionine, and oQ-tRNA [Van03]. Recognition of the tRNA substrate is mediated via the anticodon loop region [Mueller95a, Van03a].

A queA mutant accumulates preQ1-modified tRNAs [Okada78, Reuter91]. The growth rate of the queA mutant is approximately half of that of the wild-type parent strain [Okada78].

Review: [IwataReuyl03a]

Locations: cytosol

Map Position: [424,235 -> 425,305] (9.14 centisomes, 33°)
Length: 1071 bp / 356 aa

Molecular Weight of Polypeptide: 39.431 kD (from nucleotide sequence), 39.0 kD (experimental) [Reuter91 ]

pI: 5.4 [Slany93]

Unification Links: ASAP:ABE-0001411 , CGSC:29889 , DIP:DIP-47972N , EchoBASE:EB0805 , EcoGene:EG10812 , EcoliWiki:b0405 , OU-Microarray:b0405 , PortEco:queA , PR:PRO_000023668 , Protein Model Portal:P0A7F9 , RefSeq:NP_414939 , RegulonDB:EG10812 , SMR:P0A7F9 , String:511145.b0405 , UniProt:P0A7F9

Relationship Links: InterPro:IN-FAMILY:IPR003699 , Pfam:IN-FAMILY:PF02547

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for queA

GO Terms:

Biological Process: GO:0002099 - tRNA wobble guanine modification Inferred from experiment [Slany93]
GO:0008616 - queuosine biosynthetic process Inferred from experiment Inferred by computational analysis [UniProtGOA12, UniProtGOA11, GOA06, GOA01a, Reuter91, Slany93]
Molecular Function: GO:0051075 - S-adenosylmethionine:tRNA ribosyltransferase-isomerase activity Inferred from experiment [Slany93, Van03]
GO:0016740 - transferase activity Inferred by computational analysis [UniProtGOA11, GOA06, GOA01a]
GO:0016853 - isomerase activity Inferred by computational analysis [GOA06, GOA01a]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08]
GO:0005737 - cytoplasm Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, GOA06]

MultiFun Terms: information transfer RNA related RNA modification

Essentiality data for queA 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]

Last-Curated ? 07-Jan-2011 by Keseler I , SRI International

Enzymatic reaction of: S-adenosylmethionine:tRNA ribosyltransferase-isomerase

EC Number:

a 7-aminomethyl-7-deazaguanosine34 in tRNA + S-adenosyl-L-methionine <=> an epoxyqueuosine34 in tRNA + adenine + L-methionine + H+

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction of enzyme catalysis.

The reaction is physiologically favored in the direction shown. [Van03]

In Pathways: queuosine biosynthesis

Inhibitors (Competitive): S-adenosyl-L-homocysteine [Van03] , sinefungin [Van03]

Kinetic Parameters:

Km (μM)
kcat (sec-1)
kcat/Km (sec-1 μM-1)
a 7-aminomethyl-7-deazaguanosine34 in tRNA
[Van03, BRENDA14]
[Van03a, BRENDA14]

pH(opt): 8.7 [Van03a]

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


10/20/97 Gene b0405 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10812; confirmed by SwissProt match.


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

BRENDA14: BRENDA team (2014). "Imported from BRENDA version existing on Aug 2014."

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

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

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

Ishihama08: Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008). "Protein abundance profiling of the Escherichia coli cytosol." BMC Genomics 9;102. PMID: 18304323

IwataReuyl03a: Iwata-Reuyl D (2003). "Biosynthesis of the 7-deazaguanosine hypermodified nucleosides of transfer RNA." Bioorg Chem 31(1);24-43. PMID: 12697167

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

Kinzie00: Kinzie SD, Thern B, Iwata-Reuyl D (2000). "Mechanistic studies of the tRNA-modifying enzyme QueA: a chemical imperative for the use of AdoMet as a "ribosyl" donor." Org Lett 2(9);1307-10. PMID: 10810734

Mueller95a: Mueller SO, Slany RK (1995). "Structural analysis of the interaction of the tRNA modifying enzymes Tgt and QueA with a substrate tRNA." FEBS Lett 361(2-3);259-64. PMID: 7698334

Okada78: Okada N, Noguchi S, Nishimura S, Ohgi T, Goto T, Crain PF, McCloskey JA (1978). "Structure determination of a nucleoside Q precursor isolated from E. coli tRNA: 7-(aminomethyl)-7-deazaguanosine." Nucleic Acids Res 5(7);2289-96. PMID: 353740

Reuter91: Reuter K, Slany R, Ullrich F, Kersten H (1991). "Structure and organization of Escherichia coli genes involved in biosynthesis of the deazaguanine derivative queuine, a nutrient factor for eukaryotes." J Bacteriol 173(7);2256-64. PMID: 1706703

Slany93: Slany RK, Bosl M, Crain PF, Kersten H (1993). "A new function of S-adenosylmethionine: the ribosyl moiety of AdoMet is the precursor of the cyclopentenediol moiety of the tRNA wobble base queuine." Biochemistry 32(30);7811-7. PMID: 8347586

Slany94: Slany RK, Bosl M, Kersten H (1994). "Transfer and isomerization of the ribose moiety of AdoMet during the biosynthesis of queuosine tRNAs, a new unique reaction catalyzed by the QueA protein from Escherichia coli." Biochimie 76(5);389-93. PMID: 7849103

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."

UniProtGOA12: UniProt-GOA (2012). "Gene Ontology annotation based on UniPathway vocabulary mapping."

Van03: Van Lanen SG, Iwata-Reuyl D (2003). "Kinetic mechanism of the tRNA-modifying enzyme S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA)." Biochemistry 42(18);5312-20. PMID: 12731872

Van03a: Van Lanen SG, Kinzie SD, Matthieu S, Link T, Culp J, Iwata-Reuyl D (2003). "tRNA modification by S-adenosylmethionine:tRNA ribosyltransferase-isomerase. Assay development and characterization of the recombinant enzyme." J Biol Chem 278(12);10491-9. PMID: 12533518

Other References Related to Gene Regulation

Slany92: Slany RK, Kersten H (1992). "The promoter of the tgt/sec operon in Escherichia coli is preceded by an upstream activation sequence that contains a high affinity FIS binding site." Nucleic Acids Res 20(16);4193-8. PMID: 1508713

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 19.0 on Mon Aug 31, 2015, biocyc13.