Nucleic Acids Research, 2006, Vol. 34, No. 21 6091 Table 2. Comparative analysis of the nature of the first base pair and of the D-loop lengths of bacterial tRNAAsn, tRNAAsp, tRNAGln and tRNAGlu tRNAAsn 1–72 Dl tRNAAsp 1–72 tRNAGlu 1–72 AdT Asp Glu The nature of the first base pair (1–72) and the number of nucleotides of the D-loop (DI) in the four tRNAs are indicated for a sampling of 67 bacterial species. When present, the nature of nucleotides 20A and/or 20B is indicated into brackets; + and indicate whether AdT is or is not involved in formation of Asn-tRNAAsn (Asp) or Gln-tRNAGln (Glu), respectively. The shaded cells indicate conservation of the U1–A72 bp in tRNAAsn and tRNAGln and the in vivo activity of the AdT: Asp- or Glu-AdT. Dl 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 10 (U20A) 10 (C20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 10 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 10 (G20A) 9 (U20A) 8 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 8 (U20A) 8 (U20A) 9 (U20A) 8 9 (U20A) 9 (U20A) 8 (U20A) 8 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 8 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 8 (U20A) 9 (U20A) 10 (U20A) 9 (U20A) 10 (U20A) 8 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) 9 (U20A) tRNAGln 1–72 U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A A–U A–U U–A A–U U–A U–A U–A A–U U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A A–U U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A Dl 7 8 7 7 7 7 8 7 7 7 7 7 7 7 8 7 7 7 7 7 7 8 7 7 7 9 7 8 7 7 7 7 7 7 7 7 7 7 7 10 7 7 7 7 7 7 7 7 7 7 7 8 7 7 7 7 7 7 7 7 7 7 7 7 7 G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C Organism C.trachomatis M.tuberculosis H.pylori C.jejuni C.crescentus T.maritima A.aeolicus C.acetobutylicum R.prowazekii B.melitensis M.loti A.tumefaciens Si.meliloti C.tepidum C.glutamicum T.tengcongensis B.longum B.suis T.whipplei C.burnetii S.coelicolor N.meningitidis D.radiodurans P.aeruginosa C.perfringens R.solanacearum B.japonicum Pirellula sp. N.europaea P.syringae B.subtilis S.aureus U.urealyticum B.burgdorferi M.genitalium T.pallidum Synechocystis sp. L.monocytogenes S.pyogenes Nostoc sp. M.pulmonis F.nucleatum S.agalactiae T.elongatus L.interrogans O.iheyensis S.mutans B.halodurans C.tetani E.faecalis L.plantarum B.anthracis B.aphidicola V.cholerae E.coli H.influenzae P.multocida Y.pestis S.typhimurium X.campestris X.axonopodis S.oneidensis S.flexneri 2a X.fastidiosa S.enterica B.thetaiotaomicron U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A U–A G–C U–A G–C U–A U–A U–A U–A C–U G–C G–C U–A U–A U–A U–A U–A U–A U–A U–A G–C U–A U–A U–A U–A U–A U–A U–A U–A G–C G–C U–A U–A G–C U–A U–A 7 8 7 7 7 8 8 7 7 7 7 7 7 7 8 7 8 7 8 8 8 8 7 8 7 8 7 7 8 8 7 7 7 7 7 8 7 8 9 7 7 8 9 7 8 7 9 7 7 9 8 7 8 8 8 8 8 8 8 9 9 8 8 9 8 9 G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C G–C Dl 11 (CC20AB) 9 (CU20AB) 9 (CA20AB) 8 (U20A) 8 (U20A) 8 (C20A) 11 (CU20AB) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 9 (CU20AB) 8 (U20A) 8 (U20A) 8 (U20A) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 8 (U20A) 8 (U20A) 9 (CU20AB) 8 (U20A) 9 (CU20AB) 8 (U20A) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 8 (U20A) 8 (U20A) 9 (UG20AB) 8 (U20A) 9 (UU20AB) 8 (U20A) 9 (CU20AB) 8 (U20A) 8 (U20A) 9 (CU20AB) 8 (U20A) 8 (U20A) 8 (U20A) 9 (CU20AB) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 8 (U20A) 9 (UU20AB) 8 (U20A) 8 (U20A) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 9 (CC20AB) 9 (CU20AB) 9 (CU20AB) 9 (CU20AB) 9 (CC20AB) 9 (CU20AB) 9 (CC20AB) 8 (U20A) + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +