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 |