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. Author manuscript; available in PMC: 2015 Jul 1.
Published in final edited form as: Trends Biochem Sci. 2014 Jun 19;39(7):328–340. doi: 10.1016/j.tibs.2014.05.003

Table 1. List of known and putative dsRBD folds in human proteins, and databases that identify them.

Identified in InterPro database as a
dsRBDd
Protein / UniProtKB accession
numbera 		Amino acid
number in
representative
isoformb 		dsRBD
nomenclature		 Amino acids in
dsRBD (dsRBD
size)c 		Gene3D
(CATH)		 SMART Prosite Pfam
A1CF / Q9NQ94 594 1 446-523 (78) Y N N N
ADAD1 / Q96M93 576 1 96-164 (69) Y Y Y Y
ADAD2 / Q8NCV1 583 1 115-181 (67) Y Y Y Y
ADAR1 / P55265 1226 1 502-571 (70) Y Y Y Y
2 614-682 (69) Y Y Y Y
3 725-794 (70) Y Y Y Y
ADAR2 / P78563 741 1 78-146 (69) Y Y Y Y
2 232-299 (68) Y Y Y Y
ADAR3 / Q9NS39 739 1 125-193 (69) Y Y Y Y
2 274-342 (69) Y Y Y Y
CDKN2AIP / Q9NXV6 580 1 462-537 (76) Y N Y N
DGCR8 / Q8WYQ5 773 1 501-586 (67) Y Y Y Y
2 620-685 (66) N Y N Y
DHX9 / Q08211 1270 1 3-73 (71) Y Y Y Y
2 180-254 (75) Y Y Y Y
DHX30 / Q7L2E3 1222 1 80-153 (74) N N N N
2 273-342 (70) N N N N
Dicer / Q9UPY3 1922 1 (DUF283) 630-722 (80) N N N N
C-terminal 1849-1918 (70) Y N Y N
Drosha / Q9NRR4 1374 1 1259-1334 (76) Y Y Y Y
DUS2/ Q9NX74 493 1 369-435 (67) Y Y N Y
ILF3 / Q12906 894 1 398-467 (70) Y Y Y Y
2 524-590 (67) Y Y Y Y
Kanadaptin / Q9BWU0 796 1 370-439 (70) N Y N Y
NkRF / O15226 690 1 349-411 (63) Y Y N N
2 451-512 (62) N Y N N
PACT / O75569 313 1 34-101 (68) Y Y Y Y
2 126-194 (69) Y Y Y Y
3 239-308 (70) Y Y Y N
PKR / P19525 551 1 8-81 (74) Y Y Y Y
2 99-171 (73) Y Y Y Y
SON / P18583 2140 1 2053-2120 (68) Y Y Y Y
2426 1 ΔC-terminus 2371-2412 (42) Y N Y N
STAU1 / Q6PJX3 577 2 69-164 (96) Y Y Y Y
3 180-260 (67) Y Y Y Y
4 283-365 (67) Y Y Y Y
5 488-554 (67) N N N N
STAU2 / Q9NUL3 570 1 3-87 (85) Y Y Y Y
2 91-184 (94) Y Y Y Y
3 203-284 (67) Y Y Y Y
4 303-381 (67) Y Y Y Y
5 Δmiddle 496-521 (26) N N N N
STRBP / Q96SI9 672 1 387-453 (67) Y Y Y Y
2 510-578 (69) Y Y Y Y
TARBP2 / Q15633 366 1 27-100 (74) Y Y Y Y
2 159-227 (69) Y Y Y Y
3 294-361 (68) Y Y Y N
Protein /
UniProtKB
accession
numbere 		Ribosome
typef 		Amino acid
number in
representative
isoformb 		dsRBDg or
dsRBD-like fold
nomenclature		 Amino acids in
dsRBD or dsRBD-
like fold (dsRBD
or dsRBD-like
fold size)c 		Gene3D
(CATH)		 SMART Prosite Pfam
C12orf65 / Q9H3J6 mitochondrial 166 1 53-125 (73) Y N N N
ICT1 / Q14197 mitochondrial 206 1 72-163 (92) N N N N
L44mt / Q9H9J2 mitochondrial 332 1 236-306 (71) Y N Y N
MRF-1 / O75570 mitochondrial 445 1g 289-367 (79) Y N N N
RPS2/ P15880 cytoplasmic 293 1 98-167 (70) Y N N N
S5mt / P82675 mitochondrial 430 1 215-283 (69) Y N N N
a

Full length protein names and identifiers (UniProtKB [http://www.uniprot.org/]) are as follows: A1CF, apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1 (APOBEC1) complementation factor; ADAD, adenosine deaminase domain-containing protein; ADAR, adenosine deaminase that acts on RNA; CDKN2AIP, cyclin-dependent kinase inhibitor 2A-interacting protein; DGCR8, DiGeorge syndrome critical region 8; DHX9, DEAH box protein 9, also called ATPdependent RNA helicase A; DHX30, DEAH box protein 30, also called putative ATP-dependent RNA helicase DHX30; Dicer, endoribonuclease; Drosha, RNase III; DUS2, dihydrouridine synthase 2, also called tRNA-dihydrouridine(20) synthase nicotinamide adenine dinucleotide phosphate-like; ILF3, interleukin enhancer-binding factor 3; NκRF, nuclear factor kappa-light-chain enhancer of activated B cells-repressing factor; PACT, protein activator of the interferon-induced, dsRNA-activated protein kinase (PKR); PKR, also called protein kinase RNA-activated; kanadaptin; human lung cancer oncogene 3 protein; SON, Bax antagonist selected in saccharomyces 1; STAU, Staufen dsRNAbinding protein; STRBP, spermatid perinuclear RNA-binding protein; TARBP2, trans-activationresponsive RNA-binding protein.

b

Representative isoform harbors the largest number of complete dsRBDs.

c

dsRBD boundaries are derived from InterPro or manually edited based on available structural information.

d

Note that InterPro (https://www.ebi.ac.uk/interpro/) and the four programs that it uses – Genomic Threading Database (Gene3d; http://gene3d.biochem.ucl.ac.uk/Gene3D/) based on Class, Architecture, Topology and Homology (CATH) protein assignments; the Simple Modular Architecture Research Tool (SMART; http://smart.embl-heidelberg.de/); Prosite (http://prosite.expasy.org/prosite.html); and the Protein families (Pfam; http://pfam.sanger.ac.uk/) – are constantly being updated. Thus, future results might differ from those we collected for this review. N, not found using default search parameters of InterPro; “Y”, found using default search parameters of InterPro.

e

Full length protein names and UniProtKB identifiers of dsRBD or dsRBD-like folds that majorly interact with ribosomes.

f

Type of ribosome that associates with this dsRBD or dsRBD-like fold. C12orf65, probable peptide chain release factor C12orf65, mitochondrial; ICT1, immature colon carcinoma transcript 1; L44mt, protein L44 of the mitochondrial 39S ribosomal subunit; MRF-1, mitochondrial peptide chain release factor 1; RPS2, protein S2 of the 40S ribosomal subunit; S5mt, protein S5 of the 28S mitochondrial ribosome small subunit.

g

Conforms more closely to a dsRBD fold than does dsRBD-like folds.