Table 1.
List of experimentally validated novel RBPs by the Landthaler ([29]) or Hentze ([28]) group, for which neither protein nor domains within the proteins have ever been linked to RNA interaction. Protein family members are defined by Ensembl homology and are color-coded based on whether they were overlapping in both datasets (orange), found in either Castello et al. (purple) or Baltz et al. (gold), or not found at all (black). Parenthesis indicates closely related family members.
| Gene | Dataset | Description | Domain | Protein Family | Known pathways |
|---|---|---|---|---|---|
| ALDOA | [28] | Aldolase A, fructose-bisphosphate | Glycolytic | ( ALDOA, ALDOC), ALDOB | Metabolic enzyme |
| ALKBH5 | [29] | AlkB, alkylation repair homolog 5 (E. coli) | 2OG-FeII_Oxygenase | ALKBH5 | 2OG oxygenase, homologs in DNA methylation repair |
| API5 | [29] | Apoptosis inhibitor 5 | API5 | API5 | Anti-apoptotic protein |
| BTF3 | [29] | Basic transcription factor 3 | NAC | ( BTF3, BTF3L4) | Transcription factor |
| CSNK1E | [29] | Casein kinase 1, epsilon | Pkinase | (CSNK1A1, CSNK1A1L), (CSNK1G1, CSNK1G2, CSNK1G3), (CSNK1D, CSNK1E), (TTBK1, TTBK2) | Ser/Thr kinase |
| ECH1 | [28] | Enoyl CoA hydratase 1, peroxisomal | ECH | ECH1, ECHDC1, ECHDC2, ECHDC3, ECHS1, AUH, EHHADH, HADH, HADHA | Metabolic enzyme |
| EDF1 | [29] | Endothelial differentiation- related factor 1 | MBF1, HTH_3 | EDF1 | Transcriptional coactivator |
| ENO1 | [28] | Enolase 1, (alpha) | Enolase | ( ENO1, ENO2, ENO3), ENO4 | Metabolic enzyme |
| FAM32A | [28] | Family with sequence similarity 32 | DUF1754 | FAM32A | . |
| IFIT5 | [29] | Interferon-induced protein with tetratricopeptide repeats 5 | TPR_12, TPR_11, TPR_1 | (IFIT1, IFIT1B, IFIT2, IFIT3, IFIT5) | Anti-viral response, interferon induced |
| MARK2 | [28] | MAP/microtubule affinity- regulating kinase 2 | Pkinase, KA1 | (MARK1, MARK2, MARK3, MARK4), MELK, NIM1, (NUAK1, NUAK2), (PRKAA1, PRKAA2), (SIK1, SIK2, SIK3), SNRK | Ser/Thr kinase, regulator of cell polarity and stability of microtubule |
| MYBBP1A | [29] | MYB binding protein (P160) 1a | DNA_pol_phi | MYBBP1A | Transcription factor |
| PKM2 | [28] | Pyruvate kinase, muscle | PK, PK_C | PKM2, PKLR | Metabolic enzyme |
| PPIA | [28] | Peptidylprolyl isomerase A (cyclophilin A) | Pro_isomerase | PPIA, PPIAL4A, PPIAL4B, PPIAL4C, PPIAL4D, PPIAL4G, PPIE, PPIF, RANBP2 | Cyclophilin A, peptidyl-prolyl cis-trans isomerase (PPiase) family, protein chaperone |
| PPIB | [28] | Peptidylprolyl isomerase B (cyclophilin B) | Pro_isomerase | PPIB, PPIC, PPIH, PPIL1, PPIL2, PPIL3, PPIL4, CWC27, PPWD1 | cyclophilin B, peptidyl-prolyl cis-trans isomerase (PPiase) family, protein chaperone |
| PRDX1 | [29] | Peroxiredoxin 1 | AhpC-TSA, 1-cysPrx_C | ( PRDX1, PRDX2), PRDX3, PRDX4 | Metabolic enzyme, antioxidant enzyme |
| SHMT2 | [28] | Serine hydroxymethyltransferase 2 (mitochondrial) | SHMT | (SHMT1, SHMT2) | Metabolic enzyme |
| USP10 | [29] | Ubiquitin specific peptidase 10 | UCH, PAM2 | USP10 | De-ubiquitination protease |