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Table 4 Type and location of rRNA modifications of representative organisms belonging to the three domains of life Archaea (A), Eubacteria (B) and Eukarya (E)

From: RNomics and Modomics in the halophilic archaea Haloferax volcanii: identification of RNA modification genes

pos

A

B

B

E

E (B)

 

H. volcanii

M. capricolum.

E. coli

S. cerevisiae

S. cer (mito)

SSU

     

910

acp3U-910

Enz for m2G

m2G-966

m1acp3Ψ-1189

-

 

-

 

m4Cm-1402

Cm-1638

-

1352

C* = N330-1352

 

C-1404

 

-

 

-

 

m7G-1407

 

-

1432

m 6 A

 

A-1500

 

-

1450

m 6 2 A

Enz for m62A

m 6 2 A-1518

m 6 2 A-1780

-

1451

m 6 2 A

Enz for m62A

m 6 2 A-1519

m 6 2 A-1781

-

LSU

H. marismortui

    

628

m1A

 

U-571

m1A-645

-

1950

Gm

 

C-1909

A-2252

-

1956

Ψ

Enz for Ψ

m 3 Ψ-1915

Ψ-2258

-

1958

Ψ

Enz for Ψ

Ψ-1917

Ψ-2260

-

 

-

Enz for Gm

Gm-2251

Gm-2619

Gm-2270

2587

U m

Enz for U m

U m -2552

U m -2921

U m -2791

 

-

 

Ψ-2580

U-2949

Ψ-2918

2588

Gm

 

G-2553

Gm-2922

-

2619

m 3 U

 

U-2584

U-2953

-

2621

Ψ

 

U-2586

U-2955

-

  1. Here, the numbering of the specific organisms is given; modifications present in A,B,E are in bold; modification that appear specific to H. volcanii/H. marismortui (and most certainly to Archaea) are in underlined bold; for M. capricolum the presence of the modification has been predicted from the presence of the corresponding gene [34] ; for H. volcanii and yeast mitochondria [S. cer(mito)] all modifications are listed whereas for E. coli, M. capricolum and yeast cytoplasm those that are relevant for the comparison are indicated, however, in few cases, is listed a given modification in E. coli or yeast rRNA that has no equivalent in H. volcanii but is present in the vicinity of a modified nucleotides found H. volcanii.