Skip to main content

Table 1 Source of sequences and structures used for sequence-structure comparisons.

From: Novel base triples in RNA structures revealed by graph theoretical searching methods

Species Taxonomy: (Super)Phylum Database code
Bacteroides fragilis NCTC 9343 Bacteroidetes/Chlorobi group; GenBank: NC_003228
Borrelia burgdorferi B31 Spirochaetes GenBank: NC_001318
Candidatus Protochlamydia amoebophila UWE25 Chlamydiae/Verrucomicrobia group GenBank: NC_005861
Rhodopirellula baltica SH 1 Planctomycetes GenBank: NC_005027
Thiomicrospira denitrificans ATCC 33889 Proteobacteria GenBank: NC_007575
Acidobacteria bacterium Ellin345 Fibrobacteres/Acidobacteria group GenBank: NC_008009
Escherichia coli Proteobacteria PDB: 2awb
Baumannia cicadellinicola str. Hc Proteobacteria GenBank: NC_007984
Azoarcus sp. EbN1 Proteobacteria; Betaproteobacteria GenBank: NC_006513
Rhodobacter sphaeroides 2.4.1 Proteobacteria; Alphaproteobacteria GenBank: NC_007493
Anaeromyxobacter dehalogenans 2CP-C Proteobacteria; delta/epsilon subdivisions GenBank: NC_007760
Anabaena variabilis ATCC 29413 Cyanobacteria GenBank: NC_007413
Dehalococcoides sp. CBDB1 Chloroflexi; Dehalococcoidetes GenBank: NC_007356
Bacillus subtilis subsp. subtilis str. 168 Firmicutes; Bacilli GenBank: NC_000964
Deinococcus radiodurans Deinococcus-Thermus; Deinococci PDB: 1nkw
Bifidobacterium longum NCC2705 Actinobacteria GenBank: NC_004307
Thermus thermophilus Deinococcus-Thermus; Deinococci PDB: 2j00 / 2j01
Thermotoga maritima MSB8 Thermotogae GenBank: NC_000853
Aquifex aeolicus VF5 Aquificae GenBank: NC_000918
Sulfolobus solfataricus P2 Crenarchaeota; Thermoprotei GenBank: NC_002754
Pyrobaculum aerophilum str. IM2 Crenarchaeota; Thermoprotei GenBank: NC_003364
Nanoarchaeum equitans Kin4-M Nanoarchaeota GenBank: NC_005213
Haloarcula marismortui Euryarchaeota; Halobacteria PDB: 1ffk