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Table 1 List of protein-RNA complexes used in the present study

From: Structure based approach for understanding organism specific recognition of protein-RNA complexes

Complex Organism PDB code RMSD (Å) Sequence identity (%) Binding site residues
Protein (%) RNA (%)
Elongation Factor TU E. coli 1OB2:A 1.4 71 7.63 22.37
T. aquaticus 1OB5:A 9.14 20.78
Leucyl-tRNA synthetase E. coli 4ARC:A 1-2: 1.9 1-2: 45 4.09 25.29
T. thermophilus 2BTE:A 1–3: 2.5 1–3: 27 3.08 22.89
P. horikoshii 1WZ2:A 2–3: 1.6 2–3: 29 3.21 18.18
Retinoic acid inducible protein I A. platyrhynchos 4A36:A 2.6 59 4.14 28.95
H. sapiens 3TMI:A    3.17 42.86
Glutamyl-tRNA synthetase T. maritima 3AKZ:A 2.3 41 9.65 33.78
T. thermophilus 1N78:A    9.19 30.67
Aspartyl-tRNA synthetase E. coli 1IL2:A 1-2: 2.1 1-2: 49 7.12 32.00
T. thermophilus 1EFW:A 1–3: 2.2 1–3: 28 3.97 20.55
S. cerevisiae 1ASY:A 2–3: 2.3 2–3: 30 8.57 26.67
Signal recognition particle H. sapiens 1MFQ:C 1-2: 2.7 1-2: 36 9.30 6.25
M. jannaschii 2V3C:C 1–3: 5.4 1–3: 32 5.79 18.48
S. solfataricus 1QZW:A 2–3: 1.29 2–3: 48 2.50 11.70
ATP dependent RNA helicase H. sapiens 3G0H:A 1.1 51 5.19 100.00
S. cerevisiae 3PEY:A    5.57 83.33
Tyrosyl-tRNA synthetase S. cerevisiae 2DLC:X 1-2: 1.7 1-2: 35 2.79 5.26
M. jannaschii 1J1U:A 1–3: 2.7 1–3: 26 4.58 6.49
T. thermophilus 1H3E:A 2–3: 2.2 2–3: 27 4.63 16.28
Probable exosome complex exonuclease 1 A. fulgidus 3M7N:D 0.9 59 2.33 33.33
P. abyssi 2PO1:A    3.21 40.00
50S ribosomal protein L7Ae A. fulgidus 1RLG:A 0.8 60 13.45 36.00
M. jannaschii 1SDS:A    17.09 23.33
60S ribosomal protein L7 S. cerevisiae 3O5H:G 1.9 47 1.23 1.65
T. thermophila 4A1C:V    2.51 5.00
STAR family quaking protein C. elegans 4JVY:A 2.8 58 10.20 71.43
H. sapiens 4JVH:A    8.61 63.64
Retinoic acid inducible protein I A. platyrhynchos 4A2X:A 1.7 55 3.05 14.29
H. sapiens 3NCU:A    7.46 25.00
Arginyl-tRNA synthetase S. cerevisiae 1F7U:A 2.6 29 7.25 32.89
P. horikoshii 2ZUF:A    6.20 32.05
Pumilio mRNA binding factor S. cerevisiae 3 K49:A 1.1 45 9.49 90.00
H. sapiens 2YJY:A    7.43 90.00
tRNA pseudouridine synthase B E. coli 1K8W:A 1.8 34 11.31 54.55
T. maritime 1R3E:A    10.36 70.59
Signal recognition particle 19 kDa protein M. jannaschii 1LNG:A 2.1 34 35.82 16.49
S. solfataricus 3KTW:A    22.94 19.79
Phenylalanyl-tRNA synthetase T. thermophiles 2IY5:A 2.1 31 3.14 7.89
H. sapiens 3TUP:A    4.58 25.00